Glis1 (GLIS family zinc finger 1)

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Gene: Glis1 (GLIS family zinc finger 1) Rattus norvegicus

Analyze

Symbol:

Glis1

Name:

GLIS family zinc finger 1

RGD ID:

1308030

Description:

Predicted to have DNA-binding transcription activator activity, RNA polymerase II-specific; DNA-binding transcription repressor activity, RNA polymerase II-specific; and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Predicted to be involved in several processes, including fat cell differentiation; osteoblast differentiation; and regulation of transcription by RNA polymerase II. Predicted to localize to nucleus. Orthologous to human GLIS1 (GLIS family zinc finger 1); INTERACTS WITH 6-propyl-2-thiouracil; cyclophosphamide; manganese(II) chloride.

Type:

protein-coding

RefSeq Status:

MODEL

Also known as:

LOC298732; zinc finger protein GLIS1

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):	GLIS1 (GLIS family zinc finger 1)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, Treefam
Mus musculus (house mouse):	Glis1 (GLIS family zinc finger 1)	HGNC	Treefam, EggNOG, OrthoMCL, NCBI, OMA, HomoloGene, Inparanoid, Panther, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Glis1 (GLIS family zinc finger 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	GLIS1 (GLIS family zinc finger 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	GLIS1 (GLIS family zinc finger 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Glis1 (GLIS family zinc finger 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	GLIS1 (GLIS family zinc finger 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	GLIS1 (GLIS family zinc finger 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Glis1 (GLIS family zinc finger 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	GLIS1 (GLIS family zinc finger 1)	Alliance	DIOPT (HGNC\|TreeFam)

Allele / Splice:

Glis1^{Tn(sb-T2/Bart3)2.149Mcwi}

Genetic Models:

F344-Glis1^{Tn(sb-T2/Bart3)2.149Mcwi}

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	5	122,222,155 - 122,412,141 (+)	NCBI
Rnor_6.0 Ensembl	5	127,160,495 - 127,233,078 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	5	127,043,344 - 127,233,395 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	5	130,891,667 - 131,081,696 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	128,736,183 - 128,739,369 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	5	128,583,261 - 128,744,272 (+)	NCBI
Celera	5	120,966,129 - 121,156,118 (+)	NCBI		Celera
Cytogenetic Map	5	q34	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

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

2-hydroxypropanoic acid (ISO)

6-propyl-2-thiouracil (EXP)

aflatoxin B1 (ISO)

aflatoxin B2 (ISO)

antirheumatic drug (ISO)

atrazine (ISO)

benzo[a]pyrene (ISO)

benzo[e]pyrene (ISO)

choline (ISO)

crocidolite asbestos (ISO)

cyclophosphamide (EXP)

folic acid (ISO)

fonofos (ISO)

formaldehyde (ISO)

L-methionine (ISO)

manganese(II) chloride (EXP)

methapyrilene (ISO)

methimazole (EXP)

parathion (ISO)

pirinixic acid (ISO)

rac-lactic acid (ISO)

sodium fluoride (ISO)

Soman (EXP)

terbufos (ISO)

titanium dioxide (ISO)

trimellitic anhydride (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

biological_process (ND)

fat cell differentiation (ISO)

negative regulation of cell fate commitment (ISO)

negative regulation of transcription by RNA polymerase II (ISO)

osteoblast differentiation (ISO)

positive regulation of transcription by RNA polymerase II (ISO)

positive regulation of transcription, DNA-templated (ISO)

regulation of transcription by RNA polymerase II (IBA,ISO)

Cellular Component

cellular_component (ND)

nucleus (IBA,ISO)

Molecular Function

DNA binding (ISO)

DNA-binding transcription activator activity, RNA polymerase II-specific (ISO)

DNA-binding transcription factor activity, RNA polymerase II-specific (IBA)

DNA-binding transcription repressor activity, RNA polymerase II-specific (ISO)

metal ion binding (IEA)

molecular_function (ND)

protein binding (ISO)

RNA polymerase II cis-regulatory region sequence-specific DNA binding (IBA)

RNA polymerase II transcription regulatory region sequence-specific DNA binding (ISO)

sequence-specific double-stranded DNA binding (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.	MGD data from the GO Consortium
3.	RGD automated data pipeline
4.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5.	RGD automated import pipeline for gene-chemical interactions
6.	RGD comprehensive gene curation

Additional References at PubMed

PMID:12042312	PMID:12385751	PMID:30544251

Genomics

Comparative Map Data

Glis1
(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	122,222,155 - 122,412,141 (+)	NCBI
Rnor_6.0 Ensembl	5	127,160,495 - 127,233,078 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	5	127,043,344 - 127,233,395 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	5	130,891,667 - 131,081,696 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	128,736,183 - 128,739,369 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	5	128,583,261 - 128,744,272 (+)	NCBI
Celera	5	120,966,129 - 121,156,118 (+)	NCBI		Celera
Cytogenetic Map	5	q34	NCBI

GLIS1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	1	53,506,237 - 53,738,106 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	1	53,506,237 - 53,739,171 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	1	53,971,912 - 54,204,837 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
GRCh37	1	53,971,904 - 54,203,748 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	1	53,744,494 - 53,972,465 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	1	53,683,926 - 53,911,898	NCBI
Celera	1	52,259,210 - 52,487,577 (-)	NCBI
Cytogenetic Map	1	p32.3	NCBI
HuRef	1	52,086,943 - 52,314,658 (-)	NCBI		HuRef
CHM1_1	1	54,088,508 - 54,316,348 (-)	NCBI		CHM1_1

Glis1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	4	107,283,840 - 107,492,258 (+)	NCBI	GRCm39		mm39
GRCm38	4	107,426,636 - 107,635,061 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	4	107,434,591 - 107,635,061 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	4	107,107,324 - 107,307,664 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	4	107,061,873 - 107,132,993 (+)	NCBI			mm8
Celera	4	105,793,618 - 105,989,289 (+)	NCBI		Celera
Cytogenetic Map	4	C7	NCBI

Glis1
(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_004955464	5,496,031 - 5,681,011 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955464	5,495,528 - 5,680,114 (+)	NCBI	ChiLan1.0	ChiLan1.0

GLIS1
(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	54,376,866 - 54,471,851 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	1	54,376,866 - 54,610,255 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	1	52,778,438 - 53,015,050 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

GLIS1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1 Ensembl	5	55,160,743 - 55,455,423 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	5	55,231,650 - 55,455,470 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Glis1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
SpeTri2.0	NW_004936522	7,376,850 - 7,571,818 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

GLIS1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1	6	158,672,737 - 158,763,171 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	6	146,238,994 - 146,465,945 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

GLIS1
(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	20	79,191,564 - 79,425,003 (+)	NCBI
ChlSab1.1 Ensembl	20	79,330,407 - 79,424,623 (+)	Ensembl

Glis1
(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_004624934	750,523 - 950,446 (+)	NCBI

Position Markers

D5Got304

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	5	127,045,677 - 127,045,920	NCBI	Rnor6.0
Rnor_5.0	5	130,893,978 - 130,894,221	UniSTS	Rnor5.0
Celera	5	120,968,455 - 120,968,698	UniSTS
Cytogenetic Map	5	q35	UniSTS

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
70212	Niddm25	Non-insulin dependent diabetes mellitus QTL 25	3.54		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	5	1	136640934	Rat
2290448	Scl54	Serum cholesterol level QTL 54	2.93		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	31926122	136640934	Rat
1641912	Alcrsp18	Alcohol response QTL 18			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	5	35788756	147487820	Rat
1549845	Scl44	Serum cholesterol level QTL 44	6		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	5	40777918	154732375	Rat
1331801	Rf33	Renal function QTL 33	4.149		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal vascular resistance (CMO:0001900)	5	44404276	134502294	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	47745646	167946134	Rat
1576312	Emca8	Estrogen-induced mammary cancer QTL 8	4.1		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	51418671	147487820	Rat
70189	Mcs5	Mammary carcinoma susceptibility QTL 5	10.51		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	56991667	137729065	Rat
1358895	Bp254	Blood pressure QTL 254	3.6	0.0003	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	5	60072951	133313852	Rat
61426	Scl2	Serum cholesterol level QTL 2	7.3	0.001	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	5	61086525	149030144	Rat
61393	Bp7	Blood pressure QTL 7	4.5	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	61612600	168109659	Rat
2306971	Anxrr21	Anxiety related response QTL 21	9.47		fear/anxiety-related behavior trait (VT:1000241)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	5	65696672	129038896	Rat
1354598	Srn6	Serum renin concentration QTL 6	3.8		blood renin amount (VT:0003349)	plasma renin activity level (CMO:0000116)	5	71552569	157225114	Rat
1298070	Scl18	Serum cholesterol level QTL 18	3.7		blood LDL cholesterol amount (VT:0000181)	calculated plasma low density lipoprotein cholesterol level (CMO:0001245)	5	83424556	128424556	Rat
1598846	Bp293	Blood pressure QTL 293	3.9		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	83424556	128424556	Rat
1598859	Cm66	Cardiac mass QTL 66	2		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	5	83424556	128424556	Rat
1302790	Scl20	Serum cholesterol level QTL 20	6.4	0.0001	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	84963058	173504662	Rat
1298086	Bp156	Blood pressure QTL 156			arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	89502294	134502294	Rat
7411582	Foco3	Food consumption QTL 3	7.5	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	5	91585539	136585539	Rat
7411601	Foco12	Food consumption QTL 12	19.7	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	5	91585539	136585539	Rat
7411564	Bw135	Body weight QTL 135		0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	5	91585539	136585539	Rat
6903316	Bw113	Body weight QTL 113	2	0.0103	body mass (VT:0001259)	body weight (CMO:0000012)	5	91884213	136884213	Rat
1358889	Bp261	Blood pressure QTL 261	2.86		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	5	93037304	133313852	Rat
1358909	Kidm25	Kidney mass QTL 25	1.87		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	5	93037304	133313852	Rat
631527	Tls1	T-lymphoma susceptibility QTL 1	0	0.001	thymus integrity trait (VT:0010555)	post-insult time to onset of T-cell lymphoma (CMO:0001907)	5	93273130	138273130	Rat
61452	Ciaa5	CIA Autoantibody QTL 5	3.5		blood autoantibody amount (VT:0003725)	calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)	5	97921932	149030144	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	100723739	153577831	Rat
2317753	Glom24	Glomerulus QTL 24	3.1		kidney glomerulus integrity trait (VT:0010546)	kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)	5	101265591	141912026	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	102945579	154732228	Rat
1578673	Bmd13	Bone mineral density QTL 13	4.9		femur mineral mass (VT:0010011)	trabecular volumetric bone mineral density (CMO:0001729)	5	107119214	152119214	Rat
2317056	Wbc3	White blood cell count QTL 3	2.51	0.01	leukocyte quantity (VT:0000217)	white blood cell count (CMO:0000027)	5	111278451	156278451	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	112279412	157279412	Rat
7207481	Bss106	Bone structure and strength QTL 106	7.9		femur strength trait (VT:0010010)	femur ultimate force (CMO:0001675)	5	112279412	157279412	Rat
7207486	Bss109	Bone structure and strength QTL 109			femur strength trait (VT:0010010)	femur total energy absorbed before break (CMO:0001677)	5	112279412	157279412	Rat
7207488	Bss110	Bone structure and strength QTL 1	8.4		femur strength trait (VT:0010010)	femur stiffness (CMO:0001674)	5	112279412	157279412	Rat
7207491	Bss112	Bone structure and strength QTL 112	7		femur morphology trait (VT:0000559)	femur midshaft cortical cross-sectional area (CMO:0001663)	5	112279412	157279412	Rat
1298089	Scl14	Serum cholesterol level QTL 14	5.8	0.0004	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	114140832	159140832	Rat
1598847	Cm62	Cardiac mass QTL 62	3.4		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	5	114140832	159140832	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	116767924	161767924	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	116767924	161767924	Rat
8694389	Bw160	Body weight QTL 160	6.17	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	5	116767924	161767924	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	116767924	161767924	Rat
7794739	Bp372	Blood pressure QTL 372		0.0058	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	122679716	130167412	Rat
1582230	Bw78	Body weight QTL 78	3.2	0.0016	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	5	123852489	133313852	Rat
1581510	Cm54	Cardiac mass QTL 54	3.4	0.05	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	5	125455818	149568944	Rat
2293642	Bss37	Bone structure and strength QTL 37	4.64	0.0001	femur strength trait (VT:0010010)	femur ultimate force (CMO:0001675)	5	125455818	157225114	Rat

Genetic Models

This gene Glis1 is modified in the following models/strains

F344-Glis1^{Tn(sb-T2/Bart3)2.149Mcwi}

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	250
Count of miRNA genes:	105
Interacting mature miRNAs:	111
Transcripts:	ENSRNOT00000032433, ENSRNOT00000075624
Prediction methods:	Microtar, Miranda, Rnahybrid, Targetscan
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
Low		21	5	4	11	4	1	1	57	33	39	5	1
Below cutoff	3	22	47	33	7	33	7	9	17		2	6	7

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_006238561	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039111146	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039111147	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005504931	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH474008	(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:

ENSRNOT00000032433 ⟹ ENSRNOP00000036043

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	5	127,160,495 - 127,233,078 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000075624 ⟹ ENSRNOP00000064202

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	5	127,160,495 - 127,233,078 (+)	Ensembl

RefSeq Acc Id:

XM_006225448 ⟹ XP_006225510

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Celera	5	120,966,129 - 121,156,118 (+)	NCBI

Sequence:

show sequence

GCGGCTGCGGGGGCTGCGGCGCCAGAGGAGGCGCGCCGTGCTGTGCGCCCCGCGAGCCGCTGCG
CCCGCGGCGAGGAGCCTGGCGCGACCCCCAGCCGTGCGCCCCGCCCCGGCGCCATGCATTGCGA
GGTGGCCGAGGCACTTTCGGACAAGAGGCCAAAGGAGGCCCCTGGTGCTCCCGGCCCCGGCCGC
GGGCCTGCTGGCCTGGAAGCGCACATGGCCTTCAGGATTGCCGTGAGTGGCGGCGGCTGCGGGG
ATGGGAACCCACGAGACCTGCTGCCACGACTGCCGGTGCCACCACCACGGGCCCACGATCTCCT
CCGGCCCCGGAGCCCTCGAGACTACAGCGTGTCCAAGGCCGGCGGCGGCAAGGTGAACGGGAGT
TATGGGCACAGCTCAGAGAAGAGCCTGCTGGACCTGGACCTGGCCGAGGGTCCCAGCCCCTCCT
GCCACCAGGGTCTGTTTCTTCCTGCAGGGACCCCGCCACCCCGGGGTCACCCCCCTGTCTGTGA
GAGACTGCTTCATTTCCCCCACCCTAACAGGTCACCCAGGCCTCAGGCTACGTATGCGAATGGC
AGCCTCCCAGCAGCTCAGCACATCAAGCAAGAAGCCCTACCCGACTACCAGGCCATGGTCAGCG
CCCACACACCCCTGCCCACCCACTGCCGAGCCCCATTGTCCATGGGTCTGCACTCAGACCTGGA
CTTCCCAGGCCGAGGCCTCACCAACCCCGCACCTTCCTGCTACCTTGTGGGCAATGAACCCATC
TCAAGCCTGGGTCCCCAACCCGAGGCCCACCTCCCTGAGGGCAGCCTGAAACGCTGCTGCCTCC
TGGGCCTACCCCCCACCTCTTCAGCCTCCTCCTCACCCTGTGCCTCCTCAGATATCAATCCTGT
CATCCACTCCTCCCAGACAGCTCTGGTTAGCTGTGTAAACGGACTCCGAAGCCCACCTCTGCCG
GGAGACCTGGGGGGTCCTCCCAAGCGATCACGGCATGGGCCTGGGCCTGGGCCTGTATCCAGTG
ACGGCCAGGAGGGCAGCTTGCAGCTTGAAGCATGCCGGAAGTCAGGCTTCCTGAAGCAGGAGCC
CATGGACGAGTTTTCAGAGCTCTTTGCTCCTCATCAGCAGGGTTTGCCACCTCCCTACCCCTTG
CCTCAGTTGCCTACTGGCCCCAGCCTTGGAGGCCTAGGGCTAGGCCTGGCGGGCAGGATGGCGG
CCGGTCGGCAGGCATGCCGCTGGGTGGACTGCTGTGCAGCCTATGAGCAGCAGGAGGAGCTGGT
GCGGCACATCGAGAAGAGCCACATCGACCAGCGCAAGGGCGAAGACTTCACCTGCTTCTGGGCC
GGTTGTGTGCGGCGTTACAAGCCCTTCAATGCCCGCTACAAGCTGCTCATCCACATGAGGGTAC
ACTCGGGCGAGAAGCCCAACAAGTGCATGTTCGAAGGCTGCAGTAAAGCCTTTTCCCGTCTGGA
GAACCTGAAGATCCACCTGAGGAGCCACACAGGCGAGAAACCATACCTGTGCCAGCACCCAGGC
TGCCAGAAGGCCTTCAGCAACTCCAGTGACCGTGCCAAGCACCAACGCACCCACCTCGACACGA
AGCCATATGCTTGTCAGATCCCTGGCTGCTCCAAGCGCTACACGGACCCCAGCTCCCTCCGCAA
GCACGTGAAGGCCCACTCAGCCAAAGAGCAACAGGTGCGTAAGAAGCTGCACACAGGTGCCGAT
CCAGAGGCTGCCGTTCTGTCAGAGTGTCTGGCACTGCAGCAGCTCCAAGCATCCACACCTTTGC
CAGCCAGCAGAGGGAAGGGCAGCCAAACCCTGAGCCAGGAGCTACTCCCAGGTGTGTATCCTGG
CTCCGTCACCCCACAAAATGGACTTGCTTCAGGCATCCTGTCCCCTTCCCATGACGTCCCTTCC
AGGCACCACCCCCTGGAGGTCACCACTGGTTCCCACCACCACCTGTCCCCTCTGCCCACAGCTG
AGAGCACCAGGGATGGCCTGGGGCCTGGTCTCCTTTCACCCATGGTCAGCCCACTGAAGGGGCT
TGGTCCCCCACCATTGCCACCAGCCTCCCAGAGTCAGTCTCCAGGGGCACAGTCATTCTCCACG
ATCCCCAGCAAGCCTACCTACCCACCCTTCCAGAGCCCACCACCACCTCTGCCCAGCCCCCAAG
GCTACCAAGGCAGTTTCCATTCCATCCAGAACTGCTTCCCCTATGCTGACTGTTACCGGACCAC
TGAGCCAGCAGCCTCCAGGGATGGACTGGTGGGTGATGCCCATGGTTTCAACCCCTTGCGACCC
AGCACCTACTCCAGCCTCAGCACACCTTTATCTGCCCCAGGCTATGAGGCCCTGGCAGAAACTC
CATGTCCCACCTTGCAACCACAGCCATCTGAAGACCTGGTGTCCAGTGGTCCCGAGGACTGTGG
CTTCTTCCCCAATGGGGCCTTTGACCACTGCCTGAGTCACATCCCCTCCATCTACACAGACACC
TGAAGGAGCCCCACTCTACCTGCCTGCCCAGCTCCTGATACTACTTTGCCTACTTGCCATCAGC
CCTGGTGCTTCCTTACAAGGGGCAGAGAGGCCACACCACAGGGGCACTTCCCTACCTGGAGGGC
TGTCTTGTCTTGGAGCTGCCTGCCCGGAACTGTGGTCCTCTGACAGTCCCTTGACTGTATCTTC
CTCTCTCTCCCTAAGGTTCTCAAATCACAGACCTCGTGTATATACAATGTACAGGACCTCTTTC
CCGTCTCCCTGCAAGTTTTATATTTTTGGTTTTACAAGAAAAACATTAAAAACTGGAAACTAGA

hide sequence

RefSeq Acc Id:

XM_006238561 ⟹ XP_006238623

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	122,222,155 - 122,412,141 (+)	NCBI
Rnor_6.0	5	127,043,344 - 127,233,395 (+)	NCBI
Rnor_5.0	5	130,891,667 - 131,081,696 (+)	NCBI

Sequence:

show sequence

GCGGCTGCGGGGGCTGCGGCGCCAGAGGAGGCGCGCCGTGCTGTGCGCCCCGCGAGCCGCTGCG
CCCGCGGCGAGGAGCCTGGCGCGACCCCCAGCCGTGCGCCCCGCCCCGGCGCCATGCATTGCGA
GGTGGCCGAGGCACTTTCGGACAAGAGGCCAAAGGAGGCCCCTGGTGCTCCCGGCCCCGGCCGC
GGGCCTGCTGGCCTGGAAGCGCACATGGCCTTCAGGATTGCCGTGAGTGGCGGCGGCTGCGGGG
ATGGGAACCCACGAGACCTGCTGCCACGACTGCCGGTGCCACCACCACGGGCCCACGATCTCCT
CCGGCCCCGGAGCCCTCGAGACTACAGCGTGTCCAAGGCCGGCGGCGGCAAGGTGAACGGGAGT
TATGGGCACAGCTCAGAGAAGAGCCTGCTGGACCTGGACCTGGCCGAGGGTCCCAGCCCCTCCT
GCCACCAGGGTCTGTTTCTTCCTGCAGGGACCCCGCCACCCCGGGGTCACCCCCCTGTCTGTGA
GAGACTGCTTCATTTCCCCCACCCTAACAGGTCACCCAGGCCTCAGGCTACGTATGCGAATGGC
AGCCTCCCAGCAGCTCAGCACATCAAGCAAGAAGCCCTACCCGACTACCAGGCCATGGTCAGCG
CCCACACACCCCTGCCCACCCACTGCCGAGCCCCATTGTCCATGGGTCTGCACTCAGACCTGGA
CTTCCCAGGCCGAGGCCTCACCAACCCCGCACCTTCCTGCTACCTTGTGGGCAATGAACCCATC
TCAAGCCTGGGTCCCCAACCCGAGGCCCACCTCCCTGAGGGCAGCCTGAAACGCTGCTGCCTCC
TGGGCCTACCCCCCACCTCTTCAGCCTCCTCCTCACCCTGTGCCTCCTCAGATATCAATCCTGT
CATCCACTCCTCCCAGACAGCTCTGGTTAGCTGTGTAAACGGACTCCGAAGCCCACCTCTGCCG
GGAGACCTGGGGGGTCCTCCCAAGCGATCACGGCATGGGCCTGGGCCTGGGCCTGTATCCAGTG
ACGGCCAGGAGGGCAGCTTGCAGCTTGAAGCATGCCGGAAGTCAGGCTTCCTGAAGCAGGAGCC
CATGGACGAGTTTTCAGAGCTCTTTGCTCCTCATCAGCAGGGTTTGCCACCTCCCTACCCCTTG
CCTCAGTTGCCTACTGGCCCCAGCCTTGGAGGCCTAGGGCTAGGCCTGGCGGGCAGGATGGCGG
CCGGTCGGCAGGCATGCCGCTGGGTGGACTGCTGTGCAGCCTATGAGCAGCAGGAGGAGCTGGT
GCGGCACATCGAGAAGAGCCACATCGACCAGCGCAAGGGCGAAGACTTCACCTGCTTCTGGGCC
GGTTGTGTGCGGCGTTACAAGCCCTTCAATGCCCGCTACAAGCTGCTCATCCACATGAGGGTAC
ACTCGGGCGAGAAGCCCAACAAGTGCATGTTCGAAGGCTGCAGTAAAGCCTTTTCCCGTCTGGA
GAACCTGAAGATCCACCTGAGGAGCCACACAGGCGAGAAACCATACCTGTGCCAGCACCCAGGC
TGCCAGAAGGCCTTCAGCAACTCCAGTGACCGTGCCAAGCACCAACGCACCCACCTCGACACGA
AGCCATATGCTTGTCAGATCCCTGGCTGCTCCAAGCGCTACACGGACCCCAGCTCCCTCCGCAA
GCACGTGAAGGCCCACTCAGCCAAAGAGCAACAGGTGCGTAAGAAGCTGCACACAGGTGCCGAT
CCAGAGGCTGCCGTTCTGTCAGAGTGTCTGGCACTGCAGCAGCTCCAAGCATCCACACCTTTGC
CAGCCAGCAGAGGGAAGGGCAGCCAAACCCTGAGCCAGGAGCTACTCCCAGGTGTGTATCCTGG
CTCCGTCACCCCACAAAATGGACTTGCTTCAGGCATCCTGTCCCCTTCCCATGACGTCCCTTCC
AGGCACCACCCCCTGGAGGTCACCACTGGTTCCCACCACCACCTGTCCCCTCTGCCCACAGCTG
AGAGCACCAGGGATGGCCTGGGGCCTGGTCTCCTTTCACCCATGGTCAGCCCACTGAAGGGGCT
TGGTCCCCCACCATTGCCACCAGCCTCCCAGAGTCAGTCTCCAGGGGCACAGTCATTCTCCACG
ATCCCCAGCAAGCCTACCTACCCACCCTTCCAGAGCCCACCACCACCTCTGCCCAGCCCCCAAG
GCTACCAAGGCAGTTTCCATTCCATCCAGAACTGCTTCCCCTATGCTGACTGTTACCGGACCAC
TGAGCCAGCAGCCTCCAGGGATGGACTGGTGGGTGATGCCCATGGTTTCAACCCCTTGCGACCC
AGCACCTACTCCAGCCTCAGCACACCTTTATCTGCCCCAGGCTATGAGGCCCTGGCAGAAACTC
CATGTCCCACCTTGCAACCACAGCCATCTGAAGACCTGGTGTCCAGTGGTCCCGAGGACTGTGG
CTTCTTCCCCAATGGGGCCTTTGACCACTGCCTGAGTCACATCCCCTCCATCTACACAGACACC
TGAAGGAGCCCCACTCTACCTGCCTGCCCAGCTCCTGATACTACTTTGCCTACTTGCCATCAGC
CCTGGTGCTTCCTTACAAGGGGCAGAGAGGCCACACCACAGGGGCACTTCCCTACCTGGAGGGC
TGTCTTGTCTTGGAGCTGCCTGCCCGGAACTGTGGTCCTCTGACAGTCCCTTGACTGTATCTTC
CTCTCTCTCCCTAAGGTTCTCAAATCACAGACCTCGTGTATATACAATGTACAGGACCTCTTTC
CCGTCTCCCTGCAAGTTTTATATTTTTGGTTTTACAAGAAAAACATTAAAAACTGGAAACTAGA

hide sequence

RefSeq Acc Id:

XM_039111146 ⟹ XP_038967074

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	122,222,155 - 122,412,141 (+)	NCBI

RefSeq Acc Id:

XM_039111147 ⟹ XP_038967075

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	122,222,155 - 122,399,972 (+)	NCBI

RefSeq Acc Id:

XR_005504931

RefSeq Status:

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	122,222,155 - 122,409,098 (+)	NCBI

Protein Sequences


Protein RefSeqs	XP_006238623	(Get FASTA)	NCBI Sequence Viewer
	XP_038967074	(Get FASTA)	NCBI Sequence Viewer
	XP_038967075	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDL90430	(Get FASTA)	NCBI Sequence Viewer
	EDL90431	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

XP_006225510 ⟸ XM_006225448

- Sequence:

show sequence

MHCEVAEALSDKRPKEAPGAPGPGRGPAGLEAHMAFRIAVSGGGCGDGNPRDLLPRLPVPPPRA
HDLLRPRSPRDYSVSKAGGGKVNGSYGHSSEKSLLDLDLAEGPSPSCHQGLFLPAGTPPPRGHP
PVCERLLHFPHPNRSPRPQATYANGSLPAAQHIKQEALPDYQAMVSAHTPLPTHCRAPLSMGLH
SDLDFPGRGLTNPAPSCYLVGNEPISSLGPQPEAHLPEGSLKRCCLLGLPPTSSASSSPCASSD
INPVIHSSQTALVSCVNGLRSPPLPGDLGGPPKRSRHGPGPGPVSSDGQEGSLQLEACRKSGFL
KQEPMDEFSELFAPHQQGLPPPYPLPQLPTGPSLGGLGLGLAGRMAAGRQACRWVDCCAAYEQQ
EELVRHIEKSHIDQRKGEDFTCFWAGCVRRYKPFNARYKLLIHMRVHSGEKPNKCMFEGCSKAF
SRLENLKIHLRSHTGEKPYLCQHPGCQKAFSNSSDRAKHQRTHLDTKPYACQIPGCSKRYTDPS
SLRKHVKAHSAKEQQVRKKLHTGADPEAAVLSECLALQQLQASTPLPASRGKGSQTLSQELLPG
VYPGSVTPQNGLASGILSPSHDVPSRHHPLEVTTGSHHHLSPLPTAESTRDGLGPGLLSPMVSP
LKGLGPPPLPPASQSQSPGAQSFSTIPSKPTYPPFQSPPPPLPSPQGYQGSFHSIQNCFPYADC
YRTTEPAASRDGLVGDAHGFNPLRPSTYSSLSTPLSAPGYEALAETPCPTLQPQPSEDLVSSGP
EDCGFFPNGAFDHCLSHIPSIYTDT

hide sequence

RefSeq Acc Id:

XP_006238623 ⟸ XM_006238561

- Peptide Label:

isoform X1

- Sequence:

show sequence

MHCEVAEALSDKRPKEAPGAPGPGRGPAGLEAHMAFRIAVSGGGCGDGNPRDLLPRLPVPPPRA
HDLLRPRSPRDYSVSKAGGGKVNGSYGHSSEKSLLDLDLAEGPSPSCHQGLFLPAGTPPPRGHP
PVCERLLHFPHPNRSPRPQATYANGSLPAAQHIKQEALPDYQAMVSAHTPLPTHCRAPLSMGLH
SDLDFPGRGLTNPAPSCYLVGNEPISSLGPQPEAHLPEGSLKRCCLLGLPPTSSASSSPCASSD
INPVIHSSQTALVSCVNGLRSPPLPGDLGGPPKRSRHGPGPGPVSSDGQEGSLQLEACRKSGFL
KQEPMDEFSELFAPHQQGLPPPYPLPQLPTGPSLGGLGLGLAGRMAAGRQACRWVDCCAAYEQQ
EELVRHIEKSHIDQRKGEDFTCFWAGCVRRYKPFNARYKLLIHMRVHSGEKPNKCMFEGCSKAF
SRLENLKIHLRSHTGEKPYLCQHPGCQKAFSNSSDRAKHQRTHLDTKPYACQIPGCSKRYTDPS
SLRKHVKAHSAKEQQVRKKLHTGADPEAAVLSECLALQQLQASTPLPASRGKGSQTLSQELLPG
VYPGSVTPQNGLASGILSPSHDVPSRHHPLEVTTGSHHHLSPLPTAESTRDGLGPGLLSPMVSP
LKGLGPPPLPPASQSQSPGAQSFSTIPSKPTYPPFQSPPPPLPSPQGYQGSFHSIQNCFPYADC
YRTTEPAASRDGLVGDAHGFNPLRPSTYSSLSTPLSAPGYEALAETPCPTLQPQPSEDLVSSGP
EDCGFFPNGAFDHCLSHIPSIYTDT

hide sequence

RefSeq Acc Id:

ENSRNOP00000064202 ⟸ ENSRNOT00000075624

RefSeq Acc Id:

ENSRNOP00000036043 ⟸ ENSRNOT00000032433

RefSeq Acc Id:	XP_038967074 ⟸ XM_039111146
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_038967075 ⟸ XM_039111147
- Peptide Label:	isoform X3

Protein Domains

C2H2-type

Transcriptome

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

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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CSV

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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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CSV

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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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CSV

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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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CSV

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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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CSV

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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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CSV

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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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CSV

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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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CSV

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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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1308030	AgrOrtholog
Ensembl Genes	ENSRNOG00000000138	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000036043	ENTREZGENE, UniProtKB/TrEMBL
	ENSRNOP00000064202	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000032433	UniProtKB/TrEMBL
	ENSRNOT00000075624	UniProtKB/TrEMBL
InterPro	GLI-like	UniProtKB/TrEMBL
	GLIS1	UniProtKB/TrEMBL
	Znf_C2H2/integrase_DNA-bd	UniProtKB/TrEMBL
	Znf_C2H2_sf	UniProtKB/TrEMBL
NCBI Gene	298732	ENTREZGENE
PANTHER	PTHR45718	UniProtKB/TrEMBL
	PTHR45718:SF3	UniProtKB/TrEMBL
Pfam	zf-C2H2	UniProtKB/TrEMBL
PhenoGen	Glis1	PhenoGen
PROSITE	ZINC_FINGER_C2H2_1	UniProtKB/TrEMBL
	ZINC_FINGER_C2H2_2	UniProtKB/TrEMBL
SMART	ZnF_C2H2	UniProtKB/TrEMBL
Superfamily-SCOP	SSF57667	UniProtKB/TrEMBL
UniProt	F1LVY3_RAT	UniProtKB/TrEMBL
	M0R4C0_RAT	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-04-18	Glis1	GLIS family zinc finger 1	Glis1_predicted	GLIS family zinc finger 1 (predicted)	Nomenclature updated to reflect human and mouse nomenclature	1299863	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)