Phf19 (PHD finger protein 19) - Rat Genome Database

Name: Phf19
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Phf19 (PHD finger protein 19) Rattus norvegicus

Analyze

Symbol:

Phf19

Name:

PHD finger protein 19

RGD ID:

1310390

Description:

Predicted to have DNA binding activity; chromatin binding activity; and methylated histone binding activity. Predicted to be involved in several processes, including negative regulation of transcription by RNA polymerase II; positive regulation of histone H3-K27 methylation; and stem cell population maintenance. Predicted to colocalize with ESC/E(Z) complex. Orthologous to human PHF19 (PHD finger protein 19); PARTICIPATES IN histone modification pathway; INTERACTS WITH all-trans-retinoic acid; bisphenol A; cadmium dichloride.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

LOC296653

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	PHF19 (PHD finger protein 19)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, Treefam
Mus musculus (house mouse):	Phf19 (PHD finger protein 19)	HGNC	Treefam, EggNOG, OrthoMCL, NCBI, OMA, HomoloGene, Inparanoid, Panther, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Phf19 (PHD finger protein 19)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	PHF19 (PHD finger protein 19)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	PHF19 (PHD finger protein 19)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Phf19 (PHD finger protein 19)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	PHF19 (PHD finger protein 19)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	PHF19 (PHD finger protein 19)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Phf19 (PHD finger protein 19)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	PHF19 (PHD finger protein 19)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Mus musculus (house mouse):	Phf19 (PHD finger protein 19)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	phf19 (PHD finger protein 19)	Alliance	DIOPT (Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Drosophila melanogaster (fruit fly):	Pcl	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)

Latest Assembly:

Rnor_6.0 - RGSC Genome Assembly v6.0

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	3	18,175,281 - 18,197,289 (-)	NCBI
Rnor_6.0 Ensembl	3	13,957,136 - 13,978,224 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	3	13,957,136 - 13,978,283 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	3	19,276,705 - 19,297,851 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	3	13,903,402 - 13,911,007 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	3	13,801,774 - 13,812,518 (-)	NCBI
Celera	3	12,896,198 - 12,917,286 (-)	NCBI		Celera
Cytogenetic Map	3	p11	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-catechin (ISO)

(-)-epigallocatechin 3-gallate (ISO)

1,2-dimethylhydrazine (ISO)

17beta-estradiol (ISO)

2,3,7,8-tetrachlorodibenzodioxine (ISO)

3,4-methylenedioxymethamphetamine (ISO)

3-isobutyl-1-methyl-7H-xanthine (ISO)

4,4'-sulfonyldiphenol (ISO)

acrolein (ISO)

acrylamide (ISO)

all-trans-retinoic acid (EXP,ISO)

alpha-pinene (ISO)

antirheumatic drug (ISO)

benzo[a]pyrene (ISO)

benzo[b]fluoranthene (ISO)

bisphenol A (EXP,ISO)

Bisphenol B (ISO)

bisphenol F (ISO)

butanal (ISO)

cadmium dichloride (EXP)

calcitriol (ISO)

carbon nanotube (ISO)

chrysene (ISO)

cisplatin (ISO)

cobalt dichloride (EXP,ISO)

copper atom (ISO)

copper(0) (ISO)

coumestrol (ISO)

cyclosporin A (ISO)

dexamethasone (ISO)

dicrotophos (ISO)

endosulfan (EXP)

Enterolactone (ISO)

Indeno[1,2,3-cd]pyrene (ISO)

indometacin (ISO)

N-Nitrosopyrrolidine (ISO)

nickel atom (ISO)

ozone (ISO)

palbociclib (ISO)

phenethyl isothiocyanate (ISO)

pirinixic acid (ISO)

potassium chromate (ISO)

propanal (ISO)

resveratrol (ISO)

silicon dioxide (ISO)

silver atom (ISO)

silver(0) (ISO)

sodium arsenite (ISO)

sunitinib (ISO)

testosterone (ISO)

tetraphene (ISO)

trichloroethene (ISO)

trichostatin A (ISO)

trimellitic anhydride (ISO)

troglitazone (ISO)

urethane (ISO)

valproic acid (ISO)

vorinostat (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

biological_process (ND)

chromatin organization (IBA)

negative regulation of transcription by RNA polymerase II (ISO)

positive regulation of histone H3-K27 methylation (ISO)

regulation of transcription, DNA-templated (IBA)

stem cell differentiation (ISO)

stem cell population maintenance (ISO)

Cellular Component

cellular_component (ND)

ESC/E(Z) complex (IBA,ISO)

nucleus (IBA)

Molecular Function

chromatin binding (IBA)

DNA binding (IBA)

metal ion binding (IEA)

methylated histone binding (IBA,ISO)

molecular_function (ND)

protein binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

histone modification pathway (ISO)

References

References - curated


1.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	Herz HM, etal., Trends Biochem Sci. 2013 Dec;38(12):621-39. doi: 10.1016/j.tibs.2013.09.004. Epub 2013 Oct 20.
3.	Lu R and Wang GG, Trends Biochem Sci. 2013 Nov;38(11):546-55. doi: 10.1016/j.tibs.2013.08.002. Epub 2013 Sep 10.
4.	Patel DJ and Wang Z, Annu Rev Biochem. 2013;82:81-118. doi: 10.1146/annurev-biochem-072711-165700.
5.	RGD automated data pipeline
6.	RGD automated import pipeline for gene-chemical interactions
7.	RGD comprehensive gene curation
8.	Simon JA and Kingston RE, Mol Cell. 2013 Mar 7;49(5):808-24. doi: 10.1016/j.molcel.2013.02.013.

Additional References at PubMed

PMID:22438827	PMID:23104054	PMID:23160351	PMID:23273982

Genomics

Comparative Map Data

Phf19
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	3	18,175,281 - 18,197,289 (-)	NCBI
Rnor_6.0 Ensembl	3	13,957,136 - 13,978,224 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	3	13,957,136 - 13,978,283 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	3	19,276,705 - 19,297,851 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	3	13,903,402 - 13,911,007 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	3	13,801,774 - 13,812,518 (-)	NCBI
Celera	3	12,896,198 - 12,917,286 (-)	NCBI		Celera
Cytogenetic Map	3	p11	NCBI

PHF19
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	9	120,855,651 - 120,894,896 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	9	120,855,651 - 120,902,160 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	9	123,617,929 - 123,657,174 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	9	122,657,752 - 122,679,427 (-)	NCBI	NCBI36		hg18	NCBI36
Celera	9	94,266,198 - 94,288,032 (-)	NCBI
Cytogenetic Map	9	q33.2	NCBI
HuRef	9	93,235,537 - 93,254,614 (-)	NCBI		HuRef
CHM1_1	9	123,765,088 - 123,804,307 (-)	NCBI		CHM1_1

Phf19
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	2	34,783,764 - 34,804,365 (-)	NCBI	GRCm39		mm39
GRCm39 Ensembl	2	34,783,769 - 34,804,038 (-)	Ensembl
GRCm38	2	34,893,752 - 34,914,353 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	2	34,893,757 - 34,914,026 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	2	34,749,275 - 34,769,496 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	2	34,715,764 - 34,735,985 (-)	NCBI			mm8
Celera	2	34,593,706 - 34,613,934 (-)	NCBI		Celera
Cytogenetic Map	2	B	NCBI

Phf19
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955419	7,160,249 - 7,179,318 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955419	7,160,249 - 7,179,323 (+)	NCBI	ChiLan1.0	ChiLan1.0

PHF19
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	9	120,330,111 - 120,349,274 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	9	120,330,111 - 120,369,459 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	9	91,982,511 - 92,030,060 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

PHF19
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	11	73,895,104 - 73,911,030 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
Dog10K_Boxer_Tasha	11	72,308,039 - 72,351,904 (-)	NCBI
ROS_Cfam_1.0	11	75,032,636 - 75,077,220 (-)	NCBI
UMICH_Zoey_3.1	11	73,543,019 - 73,585,390 (-)	NCBI
UNSW_CanFamBas_1.0	11	73,572,259 - 73,616,852 (-)	NCBI
UU_Cfam_GSD_1.0	11	74,310,058 - 74,355,088 (-)	NCBI

Phf19
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024404947	189,540,151 - 189,558,130 (-)	NCBI
SpeTri2.0	NW_004936487	9,310,327 - 9,326,650 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

PHF19
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	1	260,899,450 - 260,920,111 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	1	260,899,462 - 260,919,776 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	1	293,000,910 - 293,012,340 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

PHF19
(Chlorocebus sabaeus - African green monkey)

Vervet Assembly	Chr	Position (strand)	Source	Genome Browsers
Vervet Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	12	18,698,705 - 18,722,702 (+)	NCBI
ChlSab1.1 Ensembl	12	18,702,523 - 18,720,446 (+)	Ensembl
Vero_WHO_p1.0	NW_023666035	24,290,767 - 24,314,063 (-)	NCBI

Phf19
(Heterocephalus glaber - naked mole-rat)

Molerat Assembly	Chr	Position (strand)	Source	Genome Browsers
Molerat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624760	14,468,418 - 14,486,942 (+)	NCBI

QTLs in Region (Rnor_6.0)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
631679	Cm10	Cardiac mass QTL 10	7.34	0.0001	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	3	1	25786001	Rat
70202	Alc19	Alcohol consumption QTL 19	2.5		drinking behavior trait (VT:0001422)	ethanol intake volume to total fluid intake volume ratio (CMO:0001591)	3	1	28136884	Rat
631545	Bp85	Blood pressure QTL 85	3.1		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	3	1	28500807	Rat
61468	Bp15	Blood pressure QTL 15	4.4		blood pressure trait (VT:0000183)	diastolic blood pressure (CMO:0000005)	3	1	28500807	Rat
61468	Bp15	Blood pressure QTL 15	4.4		blood pressure trait (VT:0000183)	systolic blood pressure (CMO:0000004)	3	1	28500807	Rat
61468	Bp15	Blood pressure QTL 15	4.4		blood pressure trait (VT:0000183)	pulse pressure (CMO:0000292)	3	1	28500807	Rat
631831	Alc8	Alcohol consumption QTL 8	2.7		consumption behavior trait (VT:0002069)	calculated ethanol drink intake rate (CMO:0001615)	3	1	32972944	Rat
4889966	Bss95	Bone structure and strength QTL 95	4.4		tibia area (VT:1000281)	tibia-fibula cross-sectional area (CMO:0001718)	3	1	37891710	Rat
2312664	Scl62	Serum cholesterol level QTL 62		0.05	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	3	1	39773425	Rat
2290452	Scl56	Serum cholesterol level QTL 56	2.26		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	3	1	95176874	Rat
1298526	Arunc3	Aerobic running capacity QTL 3	2.2		exercise endurance trait (VT:0002332)	maximum distance run on treadmill (CMO:0001406)	3	2631421	33477544	Rat
10401810	Kidm53	Kidney mass QTL 53			kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	3	2631421	48562146	Rat
70203	Gcr2	Gastric cancer resistance QTL 2	2.6		stomach morphology trait (VT:0000470)	stomach tumor susceptibility score (CMO:0002043)	3	3285929	28136884	Rat
1358357	Srcrtb1	Stress Responsive Cort Basal QTL 1	6.36	0.002	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	3	3285929	28136884	Rat
8693641	Alc30	Alcohol consumption QTL 30	2	0.739	drinking behavior trait (VT:0001422)	calculated ethanol drink intake rate (CMO:0001615)	3	5654639	25105730	Rat
1558654	Bw56	Body weight QTL 56	4.5	0.0000171	body mass (VT:0001259)	body weight (CMO:0000012)	3	6000748	34394365	Rat
6893355	Bw101	Body weight QTL 101	0.4	0.38	body mass (VT:0001259)	body weight (CMO:0000012)	3	6000748	34394365	Rat
6893363	Bw105	Body weight QTL 105	2.6	0.0036	body mass (VT:0001259)	body weight (CMO:0000012)	3	6000748	34394365	Rat
70191	BpQTLcluster4	Blood pressure QTL cluster 4	3		arterial blood pressure trait (VT:2000000)	absolute change in mean arterial blood pressure (CMO:0000533)	3	6000748	51687917	Rat
70191	BpQTLcluster4	Blood pressure QTL cluster 4	3		arterial blood pressure trait (VT:2000000)	absolute change in systolic blood pressure (CMO:0000607)	3	6000748	51687917	Rat
1558647	Cm46	Cardiac mass QTL 46	5.4	0.0000055	heart mass (VT:0007028)	heart wet weight (CMO:0000069)	3	6000866	34394121	Rat
1558650	Cm48	Cardiac mass QTL 48	4	0.0001	heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	3	6000866	34394121	Rat
1558657	Cm43	Cardiac mass QTL 43	6.6	0.0000000293	heart mass (VT:0007028)	heart wet weight (CMO:0000069)	3	6000866	34394121	Rat
1358905	Hrtrt17	Heart rate QTL 17	5.9	0.000014	heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	3	10094081	93415837	Rat
2298542	Neuinf11	Neuroinflammation QTL 11	3.9		nervous system integrity trait (VT:0010566)	spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)	3	10119318	79772001	Rat
1358885	Bp251	Blood pressure QTL 251	3.8		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	3	10639528	127023997	Rat
1358888	Bp264	Blood pressure QTL 264	4.43		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	3	10639528	127023997	Rat
11528620	Bss113	Bone structure and strength QTL 113	9.75	0.00000000017	femur morphology trait (VT:0000559)	femoral neck width (CMO:0001695)	3	12236221	15217668	Rat
634306	Bp140	Blood pressure QTL 140	3.3	0.0013	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	3	13126914	36600143	Rat
634306	Bp140	Blood pressure QTL 140	3.3	0.0013	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	3	13126914	36600143	Rat
634306	Bp140	Blood pressure QTL 140	3.3	0.0013	arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	3	13126914	36600143	Rat
634306	Bp140	Blood pressure QTL 140	3.3	0.0013	arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	3	13126914	36600143	Rat
634306	Bp140	Blood pressure QTL 140	3.3	0.0013	arterial blood pressure trait (VT:2000000)	heart rate (CMO:0000002)	3	13126914	36600143	Rat
634306	Bp140	Blood pressure QTL 140	3.3	0.0013	arterial blood pressure trait (VT:2000000)	heart rate (CMO:0000002)	3	13126914	36600143	Rat
634306	Bp140	Blood pressure QTL 140	3.3	0.0013	arterial blood pressure trait (VT:2000000)	body weight (CMO:0000012)	3	13126914	36600143	Rat
634306	Bp140	Blood pressure QTL 140	3.3	0.0013	arterial blood pressure trait (VT:2000000)	body weight (CMO:0000012)	3	13126914	36600143	Rat
631568	Bp92	Blood pressure QTL 92	2.2	0.005	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	3	13126914	41510346	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	529
Count of miRNA genes:	262
Interacting mature miRNAs:	317
Transcripts:	ENSRNOT00000025528
Prediction methods:	Microtar, Miranda, Rnahybrid
Result types:	miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.

Expression

RNA-SEQ Expression

High: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium	2									12	11	1
Low	1	41	57	41	19	41	2	2	74	23	23	10	2
Below cutoff		2					6	9			7		6

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001106570	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006233971	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008761740	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017591661	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039104781	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039104782	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039104783	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005501843	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH474001	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000115	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000025528 ⟹ ENSRNOP00000025528

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	3	13,957,136 - 13,978,224 (-)	Ensembl

RefSeq Acc Id:

NM_001106570 ⟹ NP_001100040

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	18,175,281 - 18,196,369 (-)	NCBI
Rnor_6.0	3	13,957,136 - 13,978,224 (-)	NCBI
Rnor_5.0	3	19,276,705 - 19,297,851 (-)	NCBI
RGSC_v3.4	3	13,903,402 - 13,911,007 (-)	RGD
Celera	3	12,896,198 - 12,917,286 (-)	RGD

Sequence:

show sequence

TGGTGGCCAGACTCCAAGTGGGACCGGCTGACGCGCTGCCTCGCGAAGCTGATGGAGACGCAAG
CTCTGGAACCAGGGACTCAGGAAGCCTTTGGTGCCACCAGCCCTAACAAGGGGGCCCCGTCTAA
GACCAAAAAGAACTTCAAAGACTTGATGTCTAAGGTGACAGAGGGACAGTTTGTGCTATGCCGG
TGGACTGACGGGCTATACTACCTTGGCAAGATCAAGCGGGTCAGCAGTCCTAAGCAAAGCTGCC
TCGTGACTTTCGAAGACAATTCCAAATACTGGGTCCTTTGGAAGGACATCCAGCATGCTGGTGT
TCCAGGAGAGGAGCCCAAGTGTGATGTCTGCATGGGGAAGACTTCAGGACCGATGAACGAGATC
CTCATCTGTGGGAAGTGTGGCCTGGGTTACCACCAACAGTGCCACATCCCCATAGCAGTCGATG
CCAACTGGCCCCTCCTCACTCACTGGTTCTGCCGACGCTGCATTTTCGCACTGGCTGTGAGGAA
AGGCGGTGCGCTGAAGAAAGGCGCCATCGCCAAGACGCTGCAGGCAGTGAAAATGGTGCTGTCC
TACCAGCCTGAGGAGCTCGATTGGGATTCGCCCCATCGCACCAACCAGCAGCAATGCTACTGCT
ACTGCGGCGGGCCTGGAGAGTGGTACTTACGGATGCTACAGTGCTACCGGTGTAGGCAGTGGTT
CCATGAAGCCTGTACACAGTGCCTAAGTGAGCCTATGGTGTTTGGAGACCGGTTCTACCTGTTC
TTCTGCTCCGTGTGTAACCAAGGCCCAGAGTATATCGAGAGGTTGCCCCTGAGATGGGTAGACA
TAGTTCACCTGGCCCTCTATAACCTGGGAGTACAGAGCAAGAAGAGGTACTTCGACTTTGAGGA
GATCCTGGCCTTTGTCAACCACCACTGGGAGCTCCTGCAGCTTGGCAAGCTCACGAGCACCCCT
GTGACAGAGCGAGGGCCGCATCTCCTCAACGCTCTCAACAGTTACAAAAGCCGGTTCCTGTGTG
GCAAGGAGATTAAGAAGAAGAAATGCATCTTCCGACTGCGCGTCCGTGTCCCGCCCGCCCCTCC
AGGAAAACTGCTTCCGGACAGGGCACAGATGCCAAGTGACAAAGGGACCTTTGAGCTGCTTCGT
AAGAGAGGAAAGAGCAAGCCTGGTTTGTTGCCTCAGGAATCCCAGCAGCAGAAAAGGCGAGTTT
ATAGAAGAAAAAGATCAAAGTTTTTGCTGGAAGATGCTATTCCCAGTAGTGACTTCACCTCAGC
CTGGAGCACGGACCACCACCTGGCCAGCATATTCGACTTTACACTGGATGAAATTCAGAGTTTA
AAAAGTGGCAGCTCAGGCCAGACCTTCTTCTCAGACGTGGATTCTACCGATGCTGCTAGCACCT
CAGGCTCTGCGTCCACCAGCCTCTCCCAGGACTCCAGATGGACAGTAGGCAGCCGTAAGAGGAA
GCTGGCGGCCAAAGCGTACAGGCCCCTGCGGGCAAAGCATCGGGCAGCCGAGCCGGATGGGAGA
TGCGCCTCAGACAGCAGTGCAGAGGGAGCTCCGGGCCCTGAGCAGCAGGATGAAGGCATCGACA
GCCACACGTTCGAAAGCATCAGTGGAGATGACTCCTCCCTGTCCCATCTCAAGTCCTCTATCAC
CAACTACTTCGGTGCAGCTGGGCGGTTGGCCTGCGGGGAAAAGTATCAGGTGTTGGCTCGGAGG
GTCACTCCAGAAGGCAAGGTTCAGTACCTGTTGGAATGGGAGGGCACTACCCCTTACTGATTAT
CCCTCAGAGGCTGCCCAGAGGCTGCAAACCAAAGGAGGGGCAGAAGAAGCCCCTGGGTCCCTGT
TTTCTCCAGGCTTACGGTGGTGGAGGGAAGCAGGACATCCTGGCCGCAGCCCCTGCCTGCTGTC
TGCCAGGCCAAGGTCTGTGTGCTGCTGTACCAGTTGCCCGAGTCTCTGAGGCCCTGCTGGCTCT
CTCTCGTCTATATCACACTCCATACCCTCAAACTTTCCATTGGTTCCTCCGATGGTACCCTGGC
TGTGACCCCTGATCTGAGGCCTGAAACTGATTTTCGTTGTCCCCAGTTCTCCATCTTCTGACCT
CTCCCCTGCTTGGGTGTTTCATGCGGACACACATCTTCCATGCACATATGCTCATCTGTCCCTC
ACTGGGACCACAGTGAGGAAAGGGAACCCTGTGGGTCTTCCACTTTCTCACCAGTACCCCTCAC
CCAGGAGAGTAGGGGATGCCTGAGAAAGTTCAGGATGCCTGCGACCCAGAGCCTGGGAAGTGAT
GGCCTGGGTCTCTACTGAAGGGACGAGAATCAGGGTCTTTTATTGAGGCTGGGAAGGGGGACTA
AGGGAGTCAAGGCCAAGGCTCCCAGAAGTTTGCCTGTCCCCAGCAACAGCTCTTCACTGTTGCC
GCAGACTAGAGCCTGGCCTTGCTACATAGACGTGTTCTTGAACGCGCAGATCTGGGAGGAAACG
ATGGGGAGGACCCATCCCAAACACTGTGTATACAGACAAACACCACCACACATCCCCACCAGGG
TGCCCTGGCCCTGTCCTTGGCCTCTTCCAGGGATAAATGCTGCAGTTAAATGTGAAAACCAAGC
TCCGGCCTCCTCTGGCCTGTGAACCAGCCTTGGCCCCACAGAGAAGCACAAAAGACACCCCAAG
ACACCCCTCTCCTGCATAGCTCCTGCCTTGCCCAGAAGCTGACAATCACTTTGGGGATGGGGCA
GCCGGGGGCGGGGAGAGAGGGCAGTTCCCAAGGGTCTGAATCATTGGTTCCCTTCAGAAAGGAA
GTCTTTGTCATCGATGGTAAAATAGAATTCTTAGAATGGACAAACTCAGCCGTGTCCGGAGGGA
AACCAAAACTAGGAGGTAGGCAGGGAGTCCTTATTTTTGCCTGCAGAAACAGAAACTGACTCGC
TCGGTTGGACAATTAGAAAGAAGTGCCTTTGGGGTGGGAGGCAGGGGCACCAGACTGGGACCAG
CTTCCCTGACTGCTGCTGTGGCTTCTGGCTGGGAGTGGGGAAATGGACCATCGCATGGCGACAT
CAGACTATATCAGAAGTGCTGATTTCCCCATGAGTGGGTCTGACCCCTCCACATCCACCTGTGA
GCATTAAGGAGGAGGGGGAGTCCCTGAGGTAGGCTAGACGGTCCCTGCCATACACCTCAGCAAC
CATAGTGCCTTGCAAAGGAACCTCACCTCTCACTAGACACAGCTACCCACGTCCATCTGCTTCC
CCGTCTTGGCTCAGGCAGGGCTCAGCAGATGGACACTGAGACCAGTTCTCAGTCCCACAGCTGC
TGCCACTGAGGTCCCCAAGTGGGTCCCGGTGGAAGGAGAGTTGTAAAGCCAACTCCCAGGCCAG
CAGGCATGTGGGAACTGGGGTCAAGTTTGTGGCTTCCTGTTGGCTTCTGTGAGCACGGCAACCT
CCAACATGTGTTTTCCAGGCTACTGGGGAAGCCAGAGAGTTTAGGATGGCTGTTTGTACATCTG
TCCCTCCTCCCCTGCTGTGCCCCAGAAGCTCTAGGCCTGAGGAGCAGGAAGGCAGGTGGGGTGC
TCATCCCGCTGGGGAAGCTAGCACAAGGCCTGACCAGGTCCTGGACTCCTCAAGGCAGCATTTC
ACCCCTACATGACAATAGCTGCATTACTGCCAACCGATGGTACGACCCTGTGCACCTTTGAAGA
GATTCTGGTTTTAAATTGCTGCTTTTAATAGTATTTGTTATATTAAAGTTATAATTGACGTGTC
TGGTTTACAACAT

hide sequence

RefSeq Acc Id:

XM_006233971 ⟹ XP_006234033

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	18,175,282 - 18,197,090 (-)	NCBI
Rnor_6.0	3	13,957,137 - 13,978,283 (-)	NCBI
Rnor_5.0	3	19,276,705 - 19,297,851 (-)	NCBI

Sequence:

show sequence

AGGGGCGGACACTCGGCCGGGCAGTCCTGGGCCGAGCGCACCACCGCCACCGATGTGCTTGGTG
GCCAGACTCCAAGTGGGACCGGCTGACGCGCTGCCTCGCGCAGAAGCTGATGGAGACGCAAGCT
CTGGAACCAGGGACTCAGGAAGCCTTTGGTGCCACCAGCCCTAACAAGGGGGCCCCGTCTAAGA
CCAAAAAGAACTTCAAAGACTTGATGTCTAAGGTGACAGAGGGACAGTTTGTGCTATGCCGGTG
GACTGACGGGCTATACTACCTTGGCAAGATCAAGCGGGTCAGCAGTCCTAAGCAAAGCTGCCTC
GTGACTTTCGAAGACAATTCCAAATACTGGGTCCTTTGGAAGGACATCCAGCATGCTGGTGTTC
CAGGAGAGGAGCCCAAGTGTGATGTCTGCATGGGGAAGACTTCAGGACCGATGAACGAGATCCT
CATCTGTGGGAAGTGTGGCCTGGGTTACCACCAACAGTGCCACATCCCCATAGCAGTCGATGCC
AACTGGCCCCTCCTCACTCACTGGTTCTGCCGACGCTGCATTTTCGCACTGGCTGTGAGGAAAG
GCGGTGCGCTGAAGAAAGGCGCCATCGCCAAGACGCTGCAGGCAGTGAAAATGGTGCTGTCCTA
CCAGCCTGAGGAGCTCGATTGGGATTCGCCCCATCGCACCAACCAGCAGCAATGCTACTGCTAC
TGCGGCGGGCCTGGAGAGTGGTACTTACGGATGCTACAGTGCTACCGGTGTAGGCAGTGGTTCC
ATGAAGCCTGTACACAGTGCCTAAGTGAGCCTATGGTGTTTGGAGACCGGTTCTACCTGTTCTT
CTGCTCCGTGTGTAACCAAGGCCCAGAGTATATCGAGAGGTTGCCCCTGAGATGGGTAGACATA
GTTCACCTGGCCCTCTATAACCTGGGAGTACAGAGCAAGAAGAGGTACTTCGACTTTGAGGAGA
TCCTGGCCTTTGTCAACCACCACTGGGAGCTCCTGCAGCTTGGCAAGCTCACGAGCACCCCTGT
GACAGAGCGAGGGCCGCATCTCCTCAACGCTCTCAACAGTTACAAAAGCCGGTTCCTGTGTGGC
AAGGAGATTAAGAAGAAGAAATGCATCTTCCGACTGCGCGTCCGTGTCCCGCCCGCCCCTCCAG
GAAAACTGCTTCCGGACAGGGCACAGATGCCAAGTGACAAAGGGACCTTTGAGCTGCTTCGTAA
GAGAGGAAAGAGCAAGCCTGGTTTGTTGCCTCAGGAATCCCAGCAGCAGAAAAGGCGAGTTTAT
AGAAGAAAAAGATCAAAGTTTTTGCTGGAAGATGCTATTCCCAGTAGTGACTTCACCTCAGCCT
GGAGCACGGACCACCACCTGGCCAGCATATTCGACTTTACACTGGATGAAATTCAGAGTTTAAA
AAGTGGCAGCTCAGGCCAGACCTTCTTCTCAGACGTGGATTCTACCGATGCTGCTAGCACCTCA
GGCTCTGCGTCCACCAGCCTCTCCCAGGACTCCAGATGGACAGTAGGCAGCCGTAAGAGGAAGC
TGGCGGCCAAAGCGTACAGGCCCCTGCGGGCAAAGCATCGGGCAGCCGAGCCGGATGGGAGATG
CGCCTCAGACAGCAGTGCAGAGGGAGCTCCGGGCCCTGAGCAGCAGGATGAAGGCATCGACAGC
CACACGTTCGAAAGCATCAGTGGAGATGACTCCTCCCTGTCCCATCTCAAGTCCTCTATCACCA
ACTACTTCGGTGCAGCTGGGCGGTTGGCCTGCGGGGAAAAGTATCAGGTGTTGGCTCGGAGGGT
CACTCCAGAAGGCAAGGTTCAGTACCTGTTGGAATGGGAGGGCACTACCCCTTACTGATTATCC
CTCAGAGGCTGCCCAGAGGCTGCAAACCAAAGGAGGGGCAGAAGAAGCCCCTGGGTCCCTGTTT
TCTCCAGGCTTACGGTGGTGGAGGGAAGCAGGACATCCTGGCCGCAGCCCCTGCCTGCTGTCTG
CCAGGCCAAGGTCTGTGTGCTGCTGTACCAGTTGCCCGAGTCTCTGAGGCCCTGCTGGCTCTCT
CTCGTCTATATCACACTCCATACCCTCAAACTTTCCATTGGTTCCTCCGATGGTACCCTGGCTG
TGACCCCTGATCTGAGGCCTGAAACTGATTTTCGTTGTCCCCAGTTCTCCATCTTCTGACCTCT
CCCCTGCTTGGGTGTTTCATGCGGACACACATCTTCCATGCACATATGCTCATCTGTCCCTCAC
TGGGACCACAGTGAGGAAAGGGAACCCTGTGGGTCTTCCACTTTCTCACCAGTACCCCTCACCC
AGGAGAGTAGGGGATGCCTGAGAAAGTTCAGGATGCCTGCGACCCAGAGCCTGGGAAGTGATGG
CCTGGGTCTCTACTGAAGGGACGAGAATCAGGGTCTTTTATTGAGGCTGGGAAGGGGGACTAAG
GGAGTCAAGGCCAAGGCTCCCAGAAGTTTGCCTGTCCCCAGCAACAGCTCTTCACTGTTGCCGC
AGACTAGAGCCTGGCCTTGCTACATAGACGTGTTCTTGAACGCGCAGATCTGGGAGGAAACGAT
GGGGAGGACCCATCCCAAACACTGTGTATACAGACAAACACCACCACACATCCCCACCAGGGTG
CCCTGGCCCTGTCCTTGGCCTCTTCCAGGGATAAATGCTGCAGTTAAATGTGAAAACCAAGCTC
CGGCCTCCTCTGGCCTGTGAACCAGCCTTGGCCCCACAGAGAAGCACAAAAGACACCCCAAGAC
ACCCCTCTCCTGCATAGCTCCTGCCTTGCCCAGAAGCTGACAATCACTTTGGGGATGGGGCAGC
CGGGGGCGGGGAGAGAGGGCAGTTCCCAAGGGTCTGAATCATTGGTTCCCTTCAGAAAGGAAGT
CTTTGTCATCGATGGTAAAATAGAATTCTTAGAATGGACAAACTCAGCCGTGTCCGGAGGGAAA
CCAAAACTAGGAGGTAGGCAGGGAGTCCTTATTTTTGCCTGCAGAAACAGAAACTGACTCGCTC
GGTTGGACAATTAGAAAGAAGTGCCTTTGGGGTGGGAGGCAGGGGCACCAGACTGGGACCAGCT
TCCCTGACTGCTGCTGTGGCTTCTGGCTGGGAGTGGGGAAATGGACCATCGCATGGCGACATCA
GACTATATCAGAAGTGCTGATTTCCCCATGAGTGGGTCTGACCCCTCCACATCCACCTGTGAGC
ATTAAGGAGGAGGGGGAGTCCCTGAGGTAGGCTAGACGGTCCCTGCCATACACCTCAGCAACCA
TAGTGCCTTGCAAAGGAACCTCACCTCTCACTAGACACAGCTACCCACGTCCATCTGCTTCCCC
GTCTTGGCTCAGGCAGGGCTCAGCAGATGGACACTGAGACCAGTTCTCAGTCCCACAGCTGCTG
CCACTGAGGTCCCCAAGTGGGTCCCGGTGGAAGGAGAGTTGTAAAGCCAACTCCCAGGCCAGCA
GGCATGTGGGAACTGGGGTCAAGTTTGTGGCTTCCTGTTGGCTTCTGTGAGCACGGCAACCTCC
AACATGTGTTTTCCAGGCTACTGGGGAAGCCAGAGAGTTTAGGATGGCTGTTTGTACATCTGTC
CCTCCTCCCCTGCTGTGCCCCAGAAGCTCTAGGCCTGAGGAGCAGGAAGGCAGGTGGGGTGCTC
ATCCCGCTGGGGAAGCTAGCACAAGGCCTGACCAGGTCCTGGACTCCTCAAGGCAGCATTTCAC
CCCTACATGACAATAGCTGCATTACTGCCAACCGATGGTACGACCCTGTGCACCTTTGAAGAGA
TTCTGGTTTTAAATTGCTGCTTTTAATAGTATTTGTTATATTAAAGTTATAATTGACGTGTCTG
GTTTACAACA

hide sequence

RefSeq Acc Id:

XM_008761740 ⟹ XP_008759962

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	18,175,282 - 18,187,353 (-)	NCBI
Rnor_6.0	3	13,957,137 - 13,968,942 (-)	NCBI

Sequence:

show sequence

AGAGGGGCGGACCCAGAGTGACAGCAGCGGGGCGGGGCCTCAGTGTCAGGCCTTGGAGGCGTGT
CTTGGATGGGCAAATCCAGAGTGCTCACTGGGGGCTAGGTCTAGGGTAGACGGGCCTAAAGTGA
CAGTCGCGAGGGCGGGGCCTAGGTGTCAGGCCACGGAAGCGGGATCTGGAGGGGCGGATCCTCG
ATGTCATTTTAGGGAGGGCAGATTGTTTAATGTTTAATTTTAATGTCGCTTTGCAGGAGGGAAA
CCCAGAGTAGTCTTTGGGGAAACCAAGCTTTGAGGGGCGGGCCCAGGGGGTAGGATGGCTGTCA
TAAGGCAGGTCTGGACCAATGGGAGCCAGGAGAGTTACCTAGGGATCTTAAAGGAAGGGTGCTG
AAAGTAAGCTCAGAGTGAGAACCTGTGCAGGTGCAATGGAGAGTAGAAGGCAGAGTGCTTTTCT
TGGAGTCACGTGAGAAAGGAGGAAGTGGTACTTACGGATGCTACAGTGCTACCGGTGTAGGCAG
TGGTTCCATGAAGCCTGTACACAGTGCCTAAGTGAGCCTATGGTGTTTGGAGACCGGTTCTACC
TGTTCTTCTGCTCCGTGTGTAACCAAGGCCCAGAGTATATCGAGAGGTTGCCCCTGAGATGGGT
AGACATAGTTCACCTGGCCCTCTATAACCTGGGAGTACAGAGCAAGAAGAGGTACTTCGACTTT
GAGGAGATCCTGGCCTTTGTCAACCACCACTGGGAGCTCCTGCAGCTTGGCAAGCTCACGAGCA
CCCCTGTGACAGAGCGAGGGCCGCATCTCCTCAACGCTCTCAACAGTTACAAAAGCCGGTTCCT
GTGTGGCAAGGAGATTAAGAAGAAGAAATGCATCTTCCGACTGCGCGTCCGTGTCCCGCCCGCC
CCTCCAGGAAAACTGCTTCCGGACAGGGCACAGATGCCAAGTGACAAAGGGACCTTTGAGCTGC
TTCGTAAGAGAGGAAAGAGCAAGCCTGGTTTGTTGCCTCAGGAATCCCAGCAGCAGAAAAGGCG
AGTTTATAGAAGAAAAAGATCAAAGTTTTTGCTGGAAGATGCTATTCCCAGTAGTGACTTCACC
TCAGCCTGGAGCACGGACCACCACCTGGCCAGCATATTCGACTTTACACTGGATGAAATTCAGA
GTTTAAAAAGTGGCAGCTCAGGCCAGACCTTCTTCTCAGACGTGGATTCTACCGATGCTGCTAG
CACCTCAGGCTCTGCGTCCACCAGCCTCTCCCAGGACTCCAGATGGACAGTAGGCAGCCGTAAG
AGGAAGCTGGCGGCCAAAGCGTACAGGCCCCTGCGGGCAAAGCATCGGGCAGCCGAGCCGGATG
GGAGATGCGCCTCAGACAGCAGTGCAGAGGGAGCTCCGGGCCCTGAGCAGCAGGATGAAGGCAT
CGACAGCCACACGTTCGAAAGCATCAGTGGAGATGACTCCTCCCTGTCCCATCTCAAGTCCTCT
ATCACCAACTACTTCGGTGCAGCTGGGCGGTTGGCCTGCGGGGAAAAGTATCAGGTGTTGGCTC
GGAGGGTCACTCCAGAAGGCAAGGTTCAGTACCTGTTGGAATGGGAGGGCACTACCCCTTACTG
ATTATCCCTCAGAGGCTGCCCAGAGGCTGCAAACCAAAGGAGGGGCAGAAGAAGCCCCTGGGTC
CCTGTTTTCTCCAGGCTTACGGTGGTGGAGGGAAGCAGGACATCCTGGCCGCAGCCCCTGCCTG
CTGTCTGCCAGGCCAAGGTCTGTGTGCTGCTGTACCAGTTGCCCGAGTCTCTGAGGCCCTGCTG
GCTCTCTCTCGTCTATATCACACTCCATACCCTCAAACTTTCCATTGGTTCCTCCGATGGTACC
CTGGCTGTGACCCCTGATCTGAGGCCTGAAACTGATTTTCGTTGTCCCCAGTTCTCCATCTTCT
GACCTCTCCCCTGCTTGGGTGTTTCATGCGGACACACATCTTCCATGCACATATGCTCATCTGT
CCCTCACTGGGACCACAGTGAGGAAAGGGAACCCTGTGGGTCTTCCACTTTCTCACCAGTACCC
CTCACCCAGGAGAGTAGGGGATGCCTGAGAAAGTTCAGGATGCCTGCGACCCAGAGCCTGGGAA
GTGATGGCCTGGGTCTCTACTGAAGGGACGAGAATCAGGGTCTTTTATTGAGGCTGGGAAGGGG
GACTAAGGGAGTCAAGGCCAAGGCTCCCAGAAGTTTGCCTGTCCCCAGCAACAGCTCTTCACTG
TTGCCGCAGACTAGAGCCTGGCCTTGCTACATAGACGTGTTCTTGAACGCGCAGATCTGGGAGG
AAACGATGGGGAGGACCCATCCCAAACACTGTGTATACAGACAAACACCACCACACATCCCCAC
CAGGGTGCCCTGGCCCTGTCCTTGGCCTCTTCCAGGGATAAATGCTGCAGTTAAATGTGAAAAC
CAAGCTCCGGCCTCCTCTGGCCTGTGAACCAGCCTTGGCCCCACAGAGAAGCACAAAAGACACC
CCAAGACACCCCTCTCCTGCATAGCTCCTGCCTTGCCCAGAAGCTGACAATCACTTTGGGGATG
GGGCAGCCGGGGGCGGGGAGAGAGGGCAGTTCCCAAGGGTCTGAATCATTGGTTCCCTTCAGAA
AGGAAGTCTTTGTCATCGATGGTAAAATAGAATTCTTAGAATGGACAAACTCAGCCGTGTCCGG
AGGGAAACCAAAACTAGGAGGTAGGCAGGGAGTCCTTATTTTTGCCTGCAGAAACAGAAACTGA
CTCGCTCGGTTGGACAATTAGAAAGAAGTGCCTTTGGGGTGGGAGGCAGGGGCACCAGACTGGG
ACCAGCTTCCCTGACTGCTGCTGTGGCTTCTGGCTGGGAGTGGGGAAATGGACCATCGCATGGC
GACATCAGACTATATCAGAAGTGCTGATTTCCCCATGAGTGGGTCTGACCCCTCCACATCCACC
TGTGAGCATTAAGGAGGAGGGGGAGTCCCTGAGGTAGGCTAGACGGTCCCTGCCATACACCTCA
GCAACCATAGTGCCTTGCAAAGGAACCTCACCTCTCACTAGACACAGCTACCCACGTCCATCTG
CTTCCCCGTCTTGGCTCAGGCAGGGCTCAGCAGATGGACACTGAGACCAGTTCTCAGTCCCACA
GCTGCTGCCACTGAGGTCCCCAAGTGGGTCCCGGTGGAAGGAGAGTTGTAAAGCCAACTCCCAG
GCCAGCAGGCATGTGGGAACTGGGGTCAAGTTTGTGGCTTCCTGTTGGCTTCTGTGAGCACGGC
AACCTCCAACATGTGTTTTCCAGGCTACTGGGGAAGCCAGAGAGTTTAGGATGGCTGTTTGTAC
ATCTGTCCCTCCTCCCCTGCTGTGCCCCAGAAGCTCTAGGCCTGAGGAGCAGGAAGGCAGGTGG
GGTGCTCATCCCGCTGGGGAAGCTAGCACAAGGCCTGACCAGGTCCTGGACTCCTCAAGGCAGC
ATTTCACCCCTACATGACAATAGCTGCATTACTGCCAACCGATGGTACGACCCTGTGCACCTTT
GAAGAGATTCTGGTTTTAAATTGCTGCTTTTAATAGTATTTGTTATATTAAAGTTATAATTGAC
GTGTCTGGTTTACAACA

hide sequence

RefSeq Acc Id:

XM_017591661 ⟹ XP_017447150

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	3	13,957,137 - 13,969,019 (-)	NCBI

Sequence:

show sequence

TTCGTGTCACGCTGTAGAGGTGGTACTTACGGATGCTACAGTGCTACCGGTGTAGGCAGTGGTT
CCATGAAGCCTGTACACAGTGCCTAAGTGAGCCTATGGTGTTTGGAGACCGGTTCTACCTGTTC
TTCTGCTCCGTGTGTAACCAAGGCCCAGAGTATATCGAGAGGTTGCCCCTGAGATGGGTAGACA
TAGTTCACCTGGCCCTCTATAACCTGGGAGTACAGAGCAAGAAGAGGTACTTCGACTTTGAGGA
GATCCTGGCCTTTGTCAACCACCACTGGGAGCTCCTGCAGCTTGGCAAGCTCACGAGCACCCCT
GTGACAGAGCGAGGGCCGCATCTCCTCAACGCTCTCAACAGTTACAAAAGCCGGTTCCTGTGTG
GCAAGGAGATTAAGAAGAAGAAATGCATCTTCCGACTGCGCGTCCGTGTCCCGCCCGCCCCTCC
AGGAAAACTGCTTCCGGACAGGGCACAGATGCCAAGTGACAAAGGGACCTTTGAGCTGCTTCGT
AAGAGAGGAAAGAGCAAGCCTGGTTTGTTGCCTCAGGAATCCCAGCAGCAGAAAAGGCGAGTTT
ATAGAAGAAAAAGATCAAAGTTTTTGCTGGAAGATGCTATTCCCAGTAGTGACTTCACCTCAGC
CTGGAGCACGGACCACCACCTGGCCAGCATATTCGACTTTACACTGGATGAAATTCAGAGTTTA
AAAAGTGGCAGCTCAGGCCAGACCTTCTTCTCAGACGTGGATTCTACCGATGCTGCTAGCACCT
CAGGCTCTGCGTCCACCAGCCTCTCCCAGGACTCCAGATGGACAGTAGGCAGCCGTAAGAGGAA
GCTGGCGGCCAAAGCGTACAGGCCCCTGCGGGCAAAGCATCGGGCAGCCGAGCCGGATGGGAGA
TGCGCCTCAGACAGCAGTGCAGAGGGAGCTCCGGGCCCTGAGCAGCAGGATGAAGGCATCGACA
GCCACACGTTCGAAAGCATCAGTGGAGATGACTCCTCCCTGTCCCATCTCAAGTCCTCTATCAC
CAACTACTTCGGTGCAGCTGGGCGGTTGGCCTGCGGGGAAAAGTATCAGGTGTTGGCTCGGAGG
GTCACTCCAGAAGGCAAGGTTCAGTACCTGTTGGAATGGGAGGGCACTACCCCTTACTGATTAT
CCCTCAGAGGCTGCCCAGAGGCTGCAAACCAAAGGAGGGGCAGAAGAAGCCCCTGGGTCCCTGT
TTTCTCCAGGCTTACGGTGGTGGAGGGAAGCAGGACATCCTGGCCGCAGCCCCTGCCTGCTGTC
TGCCAGGCCAAGGTCTGTGTGCTGCTGTACCAGTTGCCCGAGTCTCTGAGGCCCTGCTGGCTCT
CTCTCGTCTATATCACACTCCATACCCTCAAACTTTCCATTGGTTCCTCCGATGGTACCCTGGC
TGTGACCCCTGATCTGAGGCCTGAAACTGATTTTCGTTGTCCCCAGTTCTCCATCTTCTGACCT
CTCCCCTGCTTGGGTGTTTCATGCGGACACACATCTTCCATGCACATATGCTCATCTGTCCCTC
ACTGGGACCACAGTGAGGAAAGGGAACCCTGTGGGTCTTCCACTTTCTCACCAGTACCCCTCAC
CCAGGAGAGTAGGGGATGCCTGAGAAAGTTCAGGATGCCTGCGACCCAGAGCCTGGGAAGTGAT
GGCCTGGGTCTCTACTGAAGGGACGAGAATCAGGGTCTTTTATTGAGGCTGGGAAGGGGGACTA
AGGGAGTCAAGGCCAAGGCTCCCAGAAGTTTGCCTGTCCCCAGCAACAGCTCTTCACTGTTGCC
GCAGACTAGAGCCTGGCCTTGCTACATAGACGTGTTCTTGAACGCGCAGATCTGGGAGGAAACG
ATGGGGAGGACCCATCCCAAACACTGTGTATACAGACAAACACCACCACACATCCCCACCAGGG
TGCCCTGGCCCTGTCCTTGGCCTCTTCCAGGGATAAATGCTGCAGTTAAATGTGAAAACCAAGC
TCCGGCCTCCTCTGGCCTGTGAACCAGCCTTGGCCCCACAGAGAAGCACAAAAGACACCCCAAG
ACACCCCTCTCCTGCATAGCTCCTGCCTTGCCCAGAAGCTGACAATCACTTTGGGGATGGGGCA
GCCGGGGGCGGGGAGAGAGGGCAGTTCCCAAGGGTCTGAATCATTGGTTCCCTTCAGAAAGGAA
GTCTTTGTCATCGATGGTAAAATAGAATTCTTAGAATGGACAAACTCAGCCGTGTCCGGAGGGA
AACCAAAACTAGGAGGTAGGCAGGGAGTCCTTATTTTTGCCTGCAGAAACAGAAACTGACTCGC
TCGGTTGGACAATTAGAAAGAAGTGCCTTTGGGGTGGGAGGCAGGGGCACCAGACTGGGACCAG
CTTCCCTGACTGCTGCTGTGGCTTCTGGCTGGGAGTGGGGAAATGGACCATCGCATGGCGACAT
CAGACTATATCAGAAGTGCTGATTTCCCCATGAGTGGGTCTGACCCCTCCACATCCACCTGTGA
GCATTAAGGAGGAGGGGGAGTCCCTGAGGTAGGCTAGACGGTCCCTGCCATACACCTCAGCAAC
CATAGTGCCTTGCAAAGGAACCTCACCTCTCACTAGACACAGCTACCCACGTCCATCTGCTTCC
CCGTCTTGGCTCAGGCAGGGCTCAGCAGATGGACACTGAGACCAGTTCTCAGTCCCACAGCTGC
TGCCACTGAGGTCCCCAAGTGGGTCCCGGTGGAAGGAGAGTTGTAAAGCCAACTCCCAGGCCAG
CAGGCATGTGGGAACTGGGGTCAAGTTTGTGGCTTCCTGTTGGCTTCTGTGAGCACGGCAACCT
CCAACATGTGTTTTCCAGGCTACTGGGGAAGCCAGAGAGTTTAGGATGGCTGTTTGTACATCTG
TCCCTCCTCCCCTGCTGTGCCCCAGAAGCTCTAGGCCTGAGGAGCAGGAAGGCAGGTGGGGTGC
TCATCCCGCTGGGGAAGCTAGCACAAGGCCTGACCAGGTCCTGGACTCCTCAAGGCAGCATTTC
ACCCCTACATGACAATAGCTGCATTACTGCCAACCGATGGTACGACCCTGTGCACCTTTGAAGA
GATTCTGGTTTTAAATTGCTGCTTTTAATAGTATTTGTTATATTAAAGTTATAATTGACGTGTC
TGGTTTACAACA

hide sequence

RefSeq Acc Id:

XM_039104781 ⟹ XP_038960709

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	18,175,282 - 18,197,221 (-)	NCBI

RefSeq Acc Id:

XM_039104782 ⟹ XP_038960710

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	18,175,282 - 18,197,289 (-)	NCBI

RefSeq Acc Id:

XM_039104783 ⟹ XP_038960711

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	18,175,282 - 18,188,813 (-)	NCBI

RefSeq Acc Id:

XR_005501843

RefSeq Status:

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	18,175,282 - 18,197,091 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001100040	(Get FASTA)	NCBI Sequence Viewer
	XP_006234033	(Get FASTA)	NCBI Sequence Viewer
	XP_008759962	(Get FASTA)	NCBI Sequence Viewer
	XP_038960709	(Get FASTA)	NCBI Sequence Viewer
	XP_038960710	(Get FASTA)	NCBI Sequence Viewer
	XP_038960711	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDL93157	(Get FASTA)	NCBI Sequence Viewer
	EDL93158	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001100040 ⟸ NM_001106570

- UniProtKB:

F1M1Y4 (UniProtKB/TrEMBL)

- Sequence:

show sequence

METQALEPGTQEAFGATSPNKGAPSKTKKNFKDLMSKVTEGQFVLCRWTDGLYYLGKIKRVSSP
KQSCLVTFEDNSKYWVLWKDIQHAGVPGEEPKCDVCMGKTSGPMNEILICGKCGLGYHQQCHIP
IAVDANWPLLTHWFCRRCIFALAVRKGGALKKGAIAKTLQAVKMVLSYQPEELDWDSPHRTNQQ
QCYCYCGGPGEWYLRMLQCYRCRQWFHEACTQCLSEPMVFGDRFYLFFCSVCNQGPEYIERLPL
RWVDIVHLALYNLGVQSKKRYFDFEEILAFVNHHWELLQLGKLTSTPVTERGPHLLNALNSYKS
RFLCGKEIKKKKCIFRLRVRVPPAPPGKLLPDRAQMPSDKGTFELLRKRGKSKPGLLPQESQQQ
KRRVYRRKRSKFLLEDAIPSSDFTSAWSTDHHLASIFDFTLDEIQSLKSGSSGQTFFSDVDSTD
AASTSGSASTSLSQDSRWTVGSRKRKLAAKAYRPLRAKHRAAEPDGRCASDSSAEGAPGPEQQD
EGIDSHTFESISGDDSSLSHLKSSITNYFGAAGRLACGEKYQVLARRVTPEGKVQYLLEWEGTT
PY

hide sequence

RefSeq Acc Id:	XP_006234033 ⟸ XM_006233971
- Peptide Label:	isoform X1
- UniProtKB:	F1M1Y4 (UniProtKB/TrEMBL)
- Sequence:	show sequence METQALEPGTQEAFGATSPNKGAPSKTKKNFKDLMSKVTEGQFVLCRWTDGLYYLGKIKRVSSP KQSCLVTFEDNSKYWVLWKDIQHAGVPGEEPKCDVCMGKTSGPMNEILICGKCGLGYHQQCHIP IAVDANWPLLTHWFCRRCIFALAVRKGGALKKGAIAKTLQAVKMVLSYQPEELDWDSPHRTNQQ QCYCYCGGPGEWYLRMLQCYRCRQWFHEACTQCLSEPMVFGDRFYLFFCSVCNQGPEYIERLPL RWVDIVHLALYNLGVQSKKRYFDFEEILAFVNHHWELLQLGKLTSTPVTERGPHLLNALNSYKS RFLCGKEIKKKKCIFRLRVRVPPAPPGKLLPDRAQMPSDKGTFELLRKRGKSKPGLLPQESQQQ KRRVYRRKRSKFLLEDAIPSSDFTSAWSTDHHLASIFDFTLDEIQSLKSGSSGQTFFSDVDSTD AASTSGSASTSLSQDSRWTVGSRKRKLAAKAYRPLRAKHRAAEPDGRCASDSSAEGAPGPEQQD EGIDSHTFESISGDDSSLSHLKSSITNYFGAAGRLACGEKYQVLARRVTPEGKVQYLLEWEGTT PY hide sequence

RefSeq Acc Id:

XP_008759962 ⟸ XM_008761740

- Peptide Label:

isoform X3

- Sequence:

show sequence

MLQCYRCRQWFHEACTQCLSEPMVFGDRFYLFFCSVCNQGPEYIERLPLRWVDIVHLALYNLGV
QSKKRYFDFEEILAFVNHHWELLQLGKLTSTPVTERGPHLLNALNSYKSRFLCGKEIKKKKCIF
RLRVRVPPAPPGKLLPDRAQMPSDKGTFELLRKRGKSKPGLLPQESQQQKRRVYRRKRSKFLLE
DAIPSSDFTSAWSTDHHLASIFDFTLDEIQSLKSGSSGQTFFSDVDSTDAASTSGSASTSLSQD
SRWTVGSRKRKLAAKAYRPLRAKHRAAEPDGRCASDSSAEGAPGPEQQDEGIDSHTFESISGDD
SSLSHLKSSITNYFGAAGRLACGEKYQVLARRVTPEGKVQYLLEWEGTTPY

hide sequence

RefSeq Acc Id:

XP_017447150 ⟸ XM_017591661

- Peptide Label:

isoform X2

- Sequence:

show sequence

MLQCYRCRQWFHEACTQCLSEPMVFGDRFYLFFCSVCNQGPEYIERLPLRWVDIVHLALYNLGV
QSKKRYFDFEEILAFVNHHWELLQLGKLTSTPVTERGPHLLNALNSYKSRFLCGKEIKKKKCIF
RLRVRVPPAPPGKLLPDRAQMPSDKGTFELLRKRGKSKPGLLPQESQQQKRRVYRRKRSKFLLE
DAIPSSDFTSAWSTDHHLASIFDFTLDEIQSLKSGSSGQTFFSDVDSTDAASTSGSASTSLSQD
SRWTVGSRKRKLAAKAYRPLRAKHRAAEPDGRCASDSSAEGAPGPEQQDEGIDSHTFESISGDD
SSLSHLKSSITNYFGAAGRLACGEKYQVLARRVTPEGKVQYLLEWEGTTPY

hide sequence

RefSeq Acc Id:

ENSRNOP00000025528 ⟸ ENSRNOT00000025528

RefSeq Acc Id:	XP_038960710 ⟸ XM_039104782
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038960709 ⟸ XM_039104781
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038960711 ⟸ XM_039104783
- Peptide Label:	isoform X2

Protein Domains

PHD-type

Transcriptome

eQTL		View at Phenogen
WGCNA		View at Phenogen
Tissue/Strain Expression		View at Phenogen

Promoters

RGD ID:

13692010

Promoter ID:

EPDNEW_R2535

Type:

multiple initiation site

Name:

Phf19_1

Description:

PHD finger protein 19

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	3	13,978,273 - 13,978,333	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

ACI/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

ACI/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

BBDP/Wor (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

BN/SsN (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Buf/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

COP/CrCrl (MCW & UW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob) University of Wisconsin (Dr. James Shull)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Charles River Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)

F344/NCrl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

F344/NRrrc (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

FHH/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHH/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

FHL/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHL/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

GH/OmrMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

GK/Ox (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LE/Stm (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LEW/Crl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LEW/NCrlBR (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LH/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LL/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LN/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

M520/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

MHS/Gib (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

MNS/Gib (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

MR/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

SBH/Ygl (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBH/Ygl sequenced by MCW

SBH/Ygl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SBN/Ygl (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBN/Ygl sequenced by MCW

SBN/Ygl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SHR/NHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SHRSP/Gcrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SR/JrHsd (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Harlan Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SR/JrHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SS/Jr (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SS/JrHsdMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SS/JrHsdMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WAG/Rij (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/Gcrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

WKY/NCrl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/NHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WN/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Damaging Variants

Assembly: Rnor_5.0

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
3	19278865	19278866	A	C	snv	LE/Stm (Illumina) (KNAW), LE/Stm (SOLiD) (KNAW), LE/Stm (KyushuU)
3	19280208	19280209	T	G	snv	SR/JrHsd (MCW), FHH/EurMcwi (MCW)

Assembly: Rnor_6.0

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
3	13959296	13959297	A	C	snv	LE/Stm (RGD)

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1310390	AgrOrtholog
Ensembl Genes	ENSRNOG00000018874	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000025528	ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000025528	ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH	3.30.40.10	UniProtKB/TrEMBL
InterPro	KDM4_Tudor_2	UniProtKB/TrEMBL
	Mtf2_C_dom	UniProtKB/TrEMBL
	PHF19_PHD2	UniProtKB/TrEMBL
	Tudor	UniProtKB/TrEMBL
	Zinc_finger_PHD-type_CS	UniProtKB/TrEMBL
	Znf_FYVE_PHD	UniProtKB/TrEMBL
	Znf_PHD	UniProtKB/TrEMBL
	Znf_PHD-finger	UniProtKB/TrEMBL
	Znf_RING/FYVE/PHD	UniProtKB/TrEMBL
KEGG Report	rno:296653	UniProtKB/TrEMBL
NCBI Gene	296653	ENTREZGENE
Pfam	Mtf2_C	UniProtKB/TrEMBL
	PHD	UniProtKB/TrEMBL
	Tudor_2	UniProtKB/TrEMBL
PhenoGen	Phf19	PhenoGen
PROSITE	ZF_PHD_1	UniProtKB/TrEMBL
	ZF_PHD_2	UniProtKB/TrEMBL
SMART	PHD	UniProtKB/TrEMBL
	TUDOR	UniProtKB/TrEMBL
Superfamily-SCOP	FYVE_PHD_ZnF	UniProtKB/TrEMBL
UniProt	F1M1Y4	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-04-30	Phf19	PHD finger protein 19	Phf19_predicted	PHD finger protein 19 (predicted)	'predicted' is removed	2292626	APPROVED
2005-01-12	Phf19_predicted	PHD finger protein 19 (predicted)			Symbol and Name status set to approved	70820	APPROVED

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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RGD Manual Annotations