Syf2 (SYF2 pre-mRNA-splicing factor)

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Gene: Syf2 (SYF2 pre-mRNA-splicing factor) Rattus norvegicus

Analyze

Symbol:

Syf2

Name:

SYF2 pre-mRNA-splicing factor

RGD ID:

621592

Description:

Involved in positive regulation of cell population proliferation. Located in nucleus. Biomarker of encephalitis. Orthologous to human SYF2 (SYF2 pre-mRNA splicing factor); PARTICIPATES IN spliceosome pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; ammonium chloride; bisphenol A.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

GCIP-interacting protein p29; Gcipip; P29; pre-mRNA-splicing factor SYF2; SYF2 homolog, RNA splicing factor; SYF2 homolog, RNA splicing factor (S. cerevisiae)

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):	SYF2 (SYF2 pre-mRNA splicing factor)	HGNC	Ensembl, HomoloGene, Inparanoid, NCBI, Panther, PhylomeDB
Mus musculus (house mouse):	Syf2 (SYF2 homolog, RNA splicing factor (S. cerevisiae))	HGNC	NCBI, HomoloGene, Inparanoid, Panther, PhylomeDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Syf2 (SYF2 pre-mRNA splicing factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	SYF2 (SYF2 pre-mRNA splicing factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	LOC478184 (pre-mRNA-splicing factor SYF2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Syf2 (SYF2 pre-mRNA splicing factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	SYF2 (SYF2 pre-mRNA splicing factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	SYF2 (SYF2 pre-mRNA splicing factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Syf2 (SYF2 pre-mRNA splicing factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	SYF2 (SYF2 pre-mRNA splicing factor)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Syf2 (SYF2 homolog, RNA splicing factor (S. cerevisiae))	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	syf2 (SYF2 pre-mRNA-splicing factor)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	CG12343	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	syf-2	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	5	147,156,492 - 147,164,416 (+)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	5	147,156,480 - 147,164,414 (+)	Ensembl
Rnor_6.0	5	153,269,638 - 153,277,562 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	153,269,526 - 153,277,563 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	5	157,038,601 - 157,046,526 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	153,707,654 - 153,715,581 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	5	153,717,692 - 153,725,619 (+)	NCBI
Celera	5	145,568,681 - 145,576,494 (+)	NCBI		Celera
Cytogenetic Map	5	q36	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

encephalitis (IEP)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(-)-epigallocatechin 3-gallate (ISO)

1,2-dimethylhydrazine (ISO)

17beta-estradiol (ISO)

2,2',4,4'-Tetrabromodiphenyl ether (ISO)

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

4,4'-diaminodiphenylmethane (ISO)

acrylamide (ISO)

ammonium chloride (EXP)

atrazine (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

carbon nanotube (ISO)

choline (ISO)

cisplatin (ISO)

copper(II) sulfate (ISO)

dibenzo[a,l]pyrene (ISO)

dicrotophos (ISO)

doxorubicin (ISO)

ethanol (ISO)

ethyl methanesulfonate (ISO)

fenvalerate (EXP)

folic acid (ISO)

formaldehyde (ISO)

kojic acid (ISO)

L-methionine (ISO)

methyl methanesulfonate (ISO)

methylisothiazolinone (ISO)

methylmercury chloride (ISO)

paracetamol (ISO)

potassium chromate (ISO)

resveratrol (ISO)

urethane (ISO)

valproic acid (ISO)

vincristine (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

embryonic organ development (ISO)

gastrulation (ISO)

in utero embryonic development (ISO)

mitotic G2 DNA damage checkpoint signaling (ISO)

mRNA splicing, via spliceosome (ISO,ISS)

positive regulation of cell population proliferation (IMP)

Cellular Component

catalytic step 2 spliceosome (IBA,ISO)

nuclear speck (IEA,ISO)

nucleus (IDA,ISO)

post-mRNA release spliceosomal complex (IBA)

Prp19 complex (IBA)

U2-type catalytic step 2 spliceosome (ISO,ISS)

Molecular Function

molecular_function (ND)

protein binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

spliceosome pathway (IEA,ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Splicing and beyond: the many faces of the Prp19 complex.	Chanarat S and Strasser K, Biochim Biophys Acta. 2013 Oct;1833(10):2126-34. doi: 10.1016/j.bbamcr.2013.05.023. Epub 2013 Jun 3.
2.	p29, a novel GCIP-interacting protein, localizes in the nucleus.	Chang MS, etal., Biochem Biophys Res Commun 2000 Dec 20;279(2):732-7.
3.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
4.	Electronic Transfer of LocusLink and RefSeq Data	NCBI rat LocusLink and RefSeq merged data July 26, 2002
5.	KEGG Annotation Import Pipeline	Pipeline to import KEGG annotations from KEGG into RGD
6.	GOA pipeline	RGD automated data pipeline
7.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
8.	Comprehensive gene review and curation	RGD comprehensive gene curation
9.	Upregulation of SYF2 is associated with neuronal apoptosis caused by reactive astrogliosis to neuroinflammation.	Xu W, etal., J Neurosci Res. 2014 Mar;92(3):318-28. doi: 10.1002/jnr.23312. Epub 2013 Dec 2.

Additional References at PubMed

PMID:11991638	PMID:12437976	PMID:12473062	PMID:12477932	PMID:15489334	PMID:22448250	PMID:22658674	PMID:22681889	PMID:24962097	PMID:25944718	PMID:28076346

Genomics

Comparative Map Data

Syf2
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	5	147,156,492 - 147,164,416 (+)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	5	147,156,480 - 147,164,414 (+)	Ensembl
Rnor_6.0	5	153,269,638 - 153,277,562 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	153,269,526 - 153,277,563 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	5	157,038,601 - 157,046,526 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	153,707,654 - 153,715,581 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	5	153,717,692 - 153,725,619 (+)	NCBI
Celera	5	145,568,681 - 145,576,494 (+)	NCBI		Celera
Cytogenetic Map	5	q36	NCBI

SYF2
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	1	25,222,276 - 25,232,502 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p13 Ensembl	1	25,222,276 - 25,232,502 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	1	25,548,767 - 25,558,993 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	1	25,421,351 - 25,431,600 (-)	NCBI	NCBI36		hg18	NCBI36
Celera	1	23,873,323 - 23,883,569 (-)	NCBI
Cytogenetic Map	1	p36.11	NCBI
HuRef	1	23,802,882 - 23,813,128 (-)	NCBI		HuRef
CHM1_1	1	25,662,828 - 25,673,075 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	1	25,058,533 - 25,068,759 (-)	NCBI

Syf2
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	4	134,658,291 - 134,664,848 (+)	NCBI	GRCm39		mm39
GRCm39 Ensembl	4	134,658,209 - 134,664,859 (+)	Ensembl
GRCm38	4	134,930,980 - 134,937,537 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	4	134,930,898 - 134,937,548 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	4	134,486,895 - 134,493,452 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	4	134,203,056 - 134,209,613 (+)	NCBI			mm8
Celera	4	133,116,445 - 133,123,058 (+)	NCBI		Celera
Cytogenetic Map	4	D3	NCBI
cM Map	4	67.15	NCBI

Syf2
(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_004955452	4,848,659 - 4,857,114 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955452	4,850,049 - 4,856,647 (-)	NCBI	ChiLan1.0	ChiLan1.0

SYF2
(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	1	25,397,241 - 25,406,817 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	1	25,397,241 - 25,406,806 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	1	24,422,931 - 24,432,870 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

LOC478184
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	2	74,573,023 - 74,580,061 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
Dog10K_Boxer_Tasha	2	71,133,242 - 71,152,422 (+)	NCBI
ROS_Cfam_1.0	2	75,120,761 - 75,139,790 (+)	NCBI
ROS_Cfam_1.0 Ensembl	2	75,132,880 - 75,139,790 (+)	Ensembl
UMICH_Zoey_3.1	2	71,944,250 - 71,963,040 (+)	NCBI
UNSW_CanFamBas_1.0	2	72,950,489 - 72,969,503 (+)	NCBI
UU_Cfam_GSD_1.0	2	73,955,218 - 73,974,054 (+)	NCBI

Syf2
(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_024405058	44,144,504 - 44,150,478 (-)	NCBI
SpeTri2.0	NW_004936474	9,970,047 - 9,975,260 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SYF2
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	6	82,836,455 - 82,843,407 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	6	82,836,894 - 82,843,484 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1

SYF2
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	20	107,468,855 - 107,478,822 (+)	NCBI	ChlSab1.1		chlSab2
ChlSab1.1 Ensembl	20	107,468,940 - 107,479,036 (+)	Ensembl	ChlSab1.1		chlSab2
Vero_WHO_p1.0	NW_023666033	8,880,619 - 8,891,724 (-)	NCBI	Vero_WHO_p1.0

Syf2
(Heterocephalus glaber - naked mole-rat)

Naked Mole-rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624764	9,463,586 - 9,479,786 (-)	Ensembl	HetGla_female_1.0		hetGla2
HetGla 1.0	NW_004624764	9,464,487 - 9,479,714 (-)	NCBI	HetGla_female_1.0		hetGla2

Position Markers

RH129320

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	147,164,214 - 147,164,413 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	153,277,361 - 153,277,559	NCBI	Rnor6.0
Rnor_5.0	5	157,046,325 - 157,046,523	UniSTS	Rnor5.0
RGSC_v3.4	5	153,715,380 - 153,715,578	UniSTS	RGSC3.4
Celera	5	145,576,293 - 145,576,491	UniSTS
RH 3.4 Map	5	994.9	UniSTS
Cytogenetic Map	5	q36	UniSTS

RH129579

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	147,164,218 - 147,164,413 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	153,277,365 - 153,277,559	NCBI	Rnor6.0
Rnor_5.0	5	157,046,329 - 157,046,523	UniSTS	Rnor5.0
RGSC_v3.4	5	153,715,384 - 153,715,578	UniSTS	RGSC3.4
Celera	5	145,576,297 - 145,576,491	UniSTS
RH 3.4 Map	5	994.3	UniSTS
Cytogenetic Map	5	q36	UniSTS

RH142753

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	147,159,930 - 147,160,034 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	153,273,077 - 153,273,180	NCBI	Rnor6.0
Rnor_5.0	5	157,042,040 - 157,042,143	UniSTS	Rnor5.0
RGSC_v3.4	5	153,711,093 - 153,711,196	UniSTS	RGSC3.4
Celera	5	145,572,120 - 145,572,223	UniSTS
RH 3.4 Map	5	994.3	UniSTS
Cytogenetic Map	5	q36	UniSTS

RH138591

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	147,159,590 - 147,160,875 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	153,272,737 - 153,274,021	NCBI	Rnor6.0
Rnor_5.0	5	157,041,700 - 157,042,984	UniSTS	Rnor5.0
RGSC_v3.4	5	153,710,753 - 153,712,037	UniSTS	RGSC3.4
Celera	5	145,571,780 - 145,573,064	UniSTS
RH 3.4 Map	5	994.2	UniSTS
Cytogenetic Map	5	q36	UniSTS

RH139392

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	5	153,277,015 - 153,277,110	NCBI	Rnor6.0
Rnor_5.0	5	157,045,978 - 157,046,073	UniSTS	Rnor5.0
RGSC_v3.4	5	153,715,032 - 153,715,128	UniSTS	RGSC3.4
RH 3.4 Map	5	996.5	UniSTS
Cytogenetic Map	5	q36	UniSTS

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1576314	Eutr1	Estrogen induced uterine response QTL 1			uterus integrity trait (VT:0010575)	pyometritis severity score (CMO:0002009)	5	2138965	166875058	Rat
1549845	Scl44	Serum cholesterol level QTL 44	6		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	5	40128307	148607290	Rat
1578766	Tcas11	Tongue tumor susceptibility QTL 11	4.12		tongue integrity trait (VT:0010553)	number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)	5	46711509	161317411	Rat
61393	Bp7	Blood pressure QTL 7	4.5	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	60293434	161481680	Rat
1354598	Srn6	Serum renin concentration QTL 6	3.8		blood renin amount (VT:0003349)	plasma renin activity level (CMO:0000116)	5	69540295	151018848	Rat
1302790	Scl20	Serum cholesterol level QTL 20	6.4	0.0001	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	82394392	166664054	Rat
1331796	Thshl2	Thyroid stimulating hormone level QTL 2	2.3		blood thyroid-stimulating hormone amount (VT:0005119)	serum thyroid stimulating hormone level (CMO:0001248)	5	97059760	147465714	Rat
1358187	Emca1	Estrogen-induced mammary cancer QTL 1	4.4		mammary gland integrity trait (VT:0010552)	post-insult time to mammary tumor formation (CMO:0000345)	5	99216724	148607142	Rat
1578673	Bmd13	Bone mineral density QTL 13	4.9		femur mineral mass (VT:0010011)	trabecular volumetric bone mineral density (CMO:0001729)	5	103689353	148689353	Rat
2317056	Wbc3	White blood cell count QTL 3	2.51	0.01	leukocyte quantity (VT:0000217)	white blood cell count (CMO:0000027)	5	105999803	150999803	Rat
7207488	Bss110	Bone structure and strength QTL 1	8.4		femur strength trait (VT:0010010)	femur stiffness (CMO:0001674)	5	106906205	151906205	Rat
7207491	Bss112	Bone structure and strength QTL 112	7		femur morphology trait (VT:0000559)	femur midshaft cortical cross-sectional area (CMO:0001663)	5	106906205	151906205	Rat
7207481	Bss106	Bone structure and strength QTL 106	7.9		femur strength trait (VT:0010010)	femur ultimate force (CMO:0001675)	5	106906205	151906205	Rat
7207486	Bss109	Bone structure and strength QTL 109			femur strength trait (VT:0010010)	femur total energy absorbed before break (CMO:0001677)	5	106906205	151906205	Rat
1549838	Bss4	Bone structure and strength QTL 4	9.2		femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	5	106906205	151906205	Rat
1298089	Scl14	Serum cholesterol level QTL 14	5.8	0.0004	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	108845856	153845856	Rat
1598847	Cm62	Cardiac mass QTL 62	3.4		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	5	108845856	153845856	Rat
8657050	Bw146	Body weight QTL 146	19.84	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	5	108938288	153938288	Rat
8694441	Bw169	Body weight QTL 169	17.61	0.001	retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	5	111416838	156416838	Rat
8694198	Abfw3	Abdominal fat weight QTL 3	16.13	0.001	visceral adipose mass (VT:0010063)	abdominal fat pad weight to body weight ratio (CMO:0000095)	5	111416838	156416838	Rat
8694389	Bw160	Body weight QTL 160	6.17	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	5	111416838	156416838	Rat
8552960	Pigfal15	Plasma insulin-like growth factor 1 level QTL 15			blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	5	111416838	156416838	Rat
2293642	Bss37	Bone structure and strength QTL 37	4.64	0.0001	femur strength trait (VT:0010010)	femur ultimate force (CMO:0001675)	5	120740824	151018848	Rat
1641920	Colcs1	Colorectal carcinoma susceptibility QTL 1	2.99	0.0055	intestine integrity trait (VT:0010554)	benign colorectal tumor surface area measurement (CMO:0001799)	5	121846814	166846814	Rat
10053720	Scort26	Serum corticosterone level QTL 26	2.06	0.0147	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	5	124965598	166875058	Rat
724525	Bp147	Blood pressure QTL 147	4.3	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	126424772	166875058	Rat
1598819	Bp292	Blood pressure QTL 292	4.3		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	127798274	166875058	Rat
1598861	Cm64	Cardiac mass QTL 64	2.9		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	5	127798274	166875058	Rat
8552908	Pigfal4	Plasma insulin-like growth factor 1 level QTL 4	6.6		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	5	128506074	166875058	Rat
8694169	Bw148	Body weight QTL 148	5	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	5	128506074	166875058	Rat
634349	Bp139	Blood pressure QTL 139		0.001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	128924607	166875058	Rat
70156	Niddm30	Non-insulin dependent diabetes mellitus QTL 30	3.98		blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	5	129132447	151006154	Rat
738018	Anxrr4	Anxiety related response QTL 4	5.1		exploratory behavior trait (VT:0010471)	percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)	5	130130159	166875058	Rat
7794791	Mcs33	Mammary carcinoma susceptibility QTL 33	1.93		mammary gland integrity trait (VT:0010552)	mammary tumor incidence/prevalence measurement (CMO:0000946)	5	131345754	166875058	Rat
631505	Bp103	Blood pressure QTL 103	3.2		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	132717196	165560427	Rat
631562	Apr2	Acute phase response QTL 2	3.7		blood murinoglobulin 1 amount (VT:0010597)	plasma murinoglobulin 1 level (CMO:0001931)	5	135927956	166875058	Rat
61444	Strs2	Sensitivity to stroke QTL 2	4.7		cerebrum integrity trait (VT:0010549)	post-insult time to onset of cerebrovascular lesion (CMO:0002343)	5	135929696	166875058	Rat
1331721	Bp210	Blood pressure QTL 210	3.413		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	5	143069996	166846814	Rat
2302369	Scl60	Serum cholesterol level QTL 60	3.13		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	5	143608201	161165651	Rat
631263	Cm24	Cardiac mass QTL 24	3.5		heart mass (VT:0007028)	heart left ventricle weight to body weight ratio (CMO:0000530)	5	143799107	158428037	Rat
1300119	Bp180	Blood pressure QTL 180	3.82		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	5	144358090	157869054	Rat
2313096	Bmd78	Bone mineral density QTL 78	3.1	0.0001	tibia mineral mass (VT:1000283)	total volumetric bone mineral density (CMO:0001728)	5	144377876	161317411	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	77
Count of miRNA genes:	68
Interacting mature miRNAs:	69
Transcripts:	ENSRNOT00000024271
Prediction methods:	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	3	43	57	41	19	41	8	11	74	35	41	11	8
Low
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_133417	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC125951	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AF366369	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC081735	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC097289	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473968	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ234066	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000162	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000091494 ⟹ ENSRNOP00000072888

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	147,156,480 - 147,164,414 (+)	Ensembl
Rnor_6.0 Ensembl	5	153,269,526 - 153,277,563 (+)	Ensembl

RefSeq Acc Id:

NM_133417 ⟹ NP_596908

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	147,156,492 - 147,164,416 (+)	NCBI
Rnor_6.0	5	153,269,638 - 153,277,562 (+)	NCBI
Rnor_5.0	5	157,038,601 - 157,046,526 (+)	NCBI
RGSC_v3.4	5	153,707,654 - 153,715,581 (+)	RGD
Celera	5	145,568,681 - 145,576,494 (+)	RGD

Sequence:

show sequence

AAAGGAAGTGGAGAAGGCTGTAATGGCGGCTGTGACTGAAGTTGTGGTACCCTCGGACGGCGCG
GAAGCCAGGCCCTTGGCGGCCGAGGAGCTGGCGGCGCAGAAGCGAGAGCAGAGACTGCGCAAGT
TCCGTGAGCTGCATCTGAAGCGGAATGAAGCTCGTAAGTTAAATCACCAGGAAGTTGTGGAAGA
AGACAAAAGACTTAAGCTGCCTGCTAACTGGGAAGCCAAGAAAGCACGTCTGGAGTGGGAACTC
CAGGAAGAAGAAAAGAAGAAGGAGTGTGCAGCTCGAGGGGAAGACTACGAGAAGGTGAAACTGC
TGGAGATCAGTGCGGAGGACGCTGAGAGGTGGGAGAGGAGGAAGAAGAAGAAGAACCCTGACTT
GGGGTTTTCAGATTATGCTGCTGCCCAATTGCGCCAGTATCACCGGCTGACCAAGCAGATCAAA
CCTGACATGGAAAGCTACGAGCGACAGAGAGAAAAGCATGGAGAAGATTTTTTCCCGACATCCA
ACAGTCTTCTCCATGGGACGCATGTGCCTTTCTCAGAGGAAATTGACAGAATGGTTTTAGATCT
GGAAAAGCAAATTGAAAAGAGAGACAAATACAGCCGAAGACGTCCTTACAATGACGATGCCGAC
ATCGACTACATTAATGAGAGGAACGCCAAGTTCAACAAGAAAGCAGAGAGGTTCTACGGGAAGT
ACACGGCTGAGATCAAGCAGAACCTGGAGAGAGGAACAGCTGTGTGAGCCTGCCCTCGGGAGCA
GTACAGGAGCTGGGAAGGGGTTGGAGGTGGCCCAGGCAAATTCAAACTCCCATGTGGGACTATT
TCCTTTACTTACCCCTGCCTCCCCGAGGGCCTTCTGAAATAAATGTCTTTTCTCACCTCTCTTC
AACATGCACATGTCCACATTTTCCTGCTTGGATAGACCATGTATTTCTTGTAGTGAGTGATGTT
TTGTAAAAATCTAATTTGTATAAATCCAATTATTATTTTTCTATGTATTTTAAATGTGCATGAC
CATATATCCTTGAATTACTGGGGCGTAATGGTTGTGTACACAGTGCAGTCACTGCTGCTTTGAG
TGTTCTTAGGAAGTAGAAGCTACAGTCGGGCTTTGGGGCTGTCCAGGAAAGGACTAGGAAGCAG
AGGCTGTCAAGACAGATGCTCCTGGAGTTCTGGCACTGTCTTCCCGGGCTGGAGTCAAGGCCAT
GGCTGTGAGCCTCTCACACTCTCTTTTTAAAAACAATAAAGTGCTTTGGAATAGAAAAAAAAAA
AAAAAAAAAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_596908	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH97289	(Get FASTA)	NCBI Sequence Viewer
	AAK53393	(Get FASTA)	NCBI Sequence Viewer
	EDL80746	(Get FASTA)	NCBI Sequence Viewer
	EDL80747	(Get FASTA)	NCBI Sequence Viewer
	Q4QRB2	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_596908 ⟸ NM_133417

- UniProtKB:

Q91Y33 (UniProtKB/Swiss-Prot)

- Sequence:

show sequence

MAAVTEVVVPSDGAEARPLAAEELAAQKREQRLRKFRELHLKRNEARKLNHQEVVEEDKRLKLP
ANWEAKKARLEWELQEEEKKKECAARGEDYEKVKLLEISAEDAERWERRKKKKNPDLGFSDYAA
AQLRQYHRLTKQIKPDMESYERQREKHGEDFFPTSNSLLHGTHVPFSEEIDRMVLDLEKQIEKR
DKYSRRRPYNDDADIDYINERNAKFNKKAERFYGKYTAEIKQNLERGTAV

hide sequence

RefSeq Acc Id:

ENSRNOP00000072888 ⟸ ENSRNOT00000091494

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q4QRB2-F1-model_v2	AlphaFold	Q4QRB2	1-242	view protein structure

Transcriptome

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

Promoters

RGD ID:

13694149

Promoter ID:

EPDNEW_R4673

Type:

multiple initiation site

Name:

Syf2_1

Description:

SYF2 pre-mRNA-splicing factor

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	5	153,269,646 - 153,269,706	EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)

ACI/EurMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

ACI/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN-Lx/CubMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN/NHsdMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN/NHsdMcwi (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN/SsN (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BUF/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BXH2/CubMcwi (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BXH3/CubMcwi (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

DA/OlaHsd (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Envigo
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/DuCrl (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/NCrl (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

FHH/EurMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

FXLE16/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

FXLE18/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

GK/FarMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB10/IpcvMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB2/IpcvMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB20/IpcvMcwi (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB31/IpcvMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB4/IpcvMcwi (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LE/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEW/Crl (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF10A/StmMcwi (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF11/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF1A/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF1C/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF2B/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF3/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF4/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LH/MavRrrcAek (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Kwitek
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LL/MavRrrcAek (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Kwitek
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LN/MavRrrcAek (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Kwitek
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

M520/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

M520/NRrrcMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

MR/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

MWF/Hsd (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

PVG/Seac (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SHR/OlalpcvMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SHRSP/A3NCrl (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SR/JrHsd (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Envigo
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SS/JrHsdMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WAG/RijCrl (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WKY/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WKY/NCrl (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WN/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:621592	AgrOrtholog
BioCyc Gene	G2FUF-39553	BioCyc
Ensembl Genes	ENSRNOG00000060597	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000072888	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000091494	ENTREZGENE, UniProtKB/Swiss-Prot
IMAGE_CLONE	IMAGE:7189694	IMAGE-MGC_LOAD
	IMAGE:7445525	IMAGE-MGC_LOAD
InterPro	mRNA_splic_SYF2	UniProtKB/Swiss-Prot
KEGG Report	rno:170933	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:114270	IMAGE-MGC_LOAD
	MGC:93225	IMAGE-MGC_LOAD
NCBI Gene	170933	ENTREZGENE
PANTHER	PTHR13264	UniProtKB/Swiss-Prot
Pfam	SYF2	UniProtKB/Swiss-Prot
PhenoGen	Syf2	PhenoGen
UniProt	Q4QRB2	ENTREZGENE
	Q91Y33	ENTREZGENE
	SYF2_RAT	UniProtKB/Swiss-Prot
UniProt Secondary	Q91Y33	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2013-09-17	Syf2	SYF2 pre-mRNA-splicing factor	Syf2	SYF2 homolog, RNA splicing factor (S. cerevisiae)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-03-30	Syf2	SYF2 homolog, RNA splicing factor (S. cerevisiae)	Gcipip	GCIP-interacting protein p29	Symbol and Name updated	1299863	APPROVED
2005-01-20	Gcipip	GCIP-interacting protein p29	P29		Symbol updated	1299863	APPROVED
2002-08-07	P29	GCIP-interacting protein p29			Symbol and Name status set to provisional	70820	PROVISIONAL

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)

RGD Manual Annotations

Imported Annotations - KEGG (archival)

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RGD Manual Annotations

Imported Annotations - KEGG (archival)