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Gene: Otx2 (orthodenticle homeobox 2) Rattus norvegicus

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Symbol:

Otx2

Name:

orthodenticle homeobox 2

RGD ID:

1305705

Description:

Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in several processes, including axon guidance; positive regulation of DNA-templated transcription; and positive regulation of gastrulation. Predicted to act upstream of or within several processes, including columnar/cuboidal epithelial cell differentiation; nervous system development; and regionalization. Predicted to be located in cytoplasm; growth cone; and nucleus. Predicted to be part of transcription regulator complex. Human ortholog(s) of this gene implicated in combined pituitary hormone deficiency 6 and syndromic microphthalmia 5. Orthologous to human OTX2 (orthodenticle homeobox 2); INTERACTS WITH (R)-lipoic acid; 6-propyl-2-thiouracil; all-trans-retinoic acid.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

homeobox Otx2; homeobox protein OTX2; homeobox protein OTX2-like; LOC100911492; LOC305858; orthodenticle homolog 2; orthodenticle homolog 2 (Drosophila)

RGD Orthologs

Alliance Orthologs

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):	OTX2 (orthodenticle homeobox 2)	RGD	RGD
Mus musculus (house mouse):	Otx2 (orthodenticle homeobox 2)	RGD	RGD
Chinchilla lanigera (long-tailed chinchilla):	Otx2 (orthodenticle homeobox 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	OTX2 (orthodenticle homeobox 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	OTX2 (orthodenticle homeobox 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Otx2 (orthodenticle homeobox 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	OTX2 (orthodenticle homeobox 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	OTX2 (orthodenticle homeobox 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Otx2 (orthodenticle homeobox 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus rattus (black rat):	Otx2 (orthodenticle homeobox 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	OTX2 (orthodenticle homeobox 2)	Alliance	DIOPT (Ensembl Compara\|HGNC\|OrthoFinder\|PhylomeDB)
Homo sapiens (human):	OTX2 (orthodenticle homeobox 2)	Alliance	DIOPT (Ensembl Compara\|HGNC\|PhylomeDB)
Mus musculus (house mouse):	Otx2 (orthodenticle homeobox 2)	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PhylomeDB)
Mus musculus (house mouse):	Otx2 (orthodenticle homeobox 2)	Alliance	DIOPT (Ensembl Compara\|PhylomeDB)
Danio rerio (zebrafish):	otx2b	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PhylomeDB)
Danio rerio (zebrafish):	otx2b	Alliance	DIOPT (Ensembl Compara\|PhylomeDB)
Xenopus tropicalis (tropical clawed frog):	otx2	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PhylomeDB)
Xenopus tropicalis (tropical clawed frog):	otx2	Alliance	DIOPT (Ensembl Compara\|PhylomeDB)

Latest Assembly:

GRCr8 - GRCr8 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	15	24,422,876 - 24,432,709 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	15	24,422,876 - 24,432,472 (-)	Ensembl				GRCr8
mRatBN7.2	15	21,942,233 - 21,953,034 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	15	21,943,191 - 21,953,416 (-)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	15	24,723,960 - 24,733,547 (-)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	15	25,681,846 - 25,691,428 (-)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	15	23,932,468 - 23,942,055 (-)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Dahl_SR_JrHsd	15	23,140,545 - 23,150,145 (-)	NCBI		Dahl_SR_JrHsd
Lyon_Normotensive	15	23,047,090 - 23,056,692 (-)	NCBI		Lyon_Normotensive
Lyon_Hypertensive	15	23,150,180 - 23,159,782 (-)	NCBI		Lyon_Hypertensive
F344_StmMcwi	15	23,751,487 - 23,761,089 (-)	NCBI		F344_StmMcwi
Rnor_6.0	15	25,500,037 - 25,511,619 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	15	25,517,721 - 25,521,393 (-)	Ensembl			rn6	Rnor6.0
Rnor_6.0 Ensembl	15	25,502,019 - 25,505,691 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	15	29,425,136 - 29,435,678 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	15	24,622,851 - 24,632,435 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	15	22,321,144 - 22,330,728 (-)	NCBI		Celera
RGSC_v3.1	15	24,638,550 - 24,643,418 (-)	NCBI
Cytogenetic Map	15	p14	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Anophthalmia (ISO)

combined pituitary hormone deficiency (ISO)

combined pituitary hormone deficiency 6 (ISO)

Desbuquois dysplasia (ISO)

fundus dystrophy (ISO)

genetic disease (ISO)

Jaw Abnormalities (ISO)

Leber congenital amaurosis (ISO)

medulloblastoma (ISO)

microcephaly (ISO)

microphthalmia (ISO)

Nerve Degeneration (ISO)

optic atrophy (ISO)

retinitis pigmentosa 1 (ISO)

spermatogenic failure 57 (ISO)

syndromic microphthalmia (ISO)

syndromic microphthalmia 5 (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(R)-lipoic acid (EXP)

1,2-dichloroethane (ISO)

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

5-fluorouracil (ISO)

6-propyl-2-thiouracil (EXP)

acetaldehyde (ISO)

acrylamide (ISO)

aflatoxin B1 (ISO)

all-trans-retinoic acid (EXP,ISO)

amitrole (EXP)

ammonium chloride (EXP)

arsenite(3-) (ISO)

benzo[a]pyrene (EXP,ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

cadmium dichloride (ISO)

captan (ISO)

carbamazepine (ISO)

carbaryl (ISO)

carbon nanotube (ISO)

CHIR 99021 (ISO)

CHIR-98014 (ISO)

choline (ISO)

copper atom (EXP)

copper(0) (EXP)

Cuprizon (EXP)

diazinon (EXP)

dieldrin (ISO)

dorsomorphin (ISO)

ethanol (ISO)

fluoxetine (ISO)

flusilazole (ISO)

folic acid (ISO)

gamma-hexachlorocyclohexane (ISO)

glycidol (EXP)

hexachlorophene (ISO)

kainic acid (EXP)

L-ascorbic acid (ISO)

L-ascorbic acid 2-phosphate (ISO)

L-methionine (ISO)

lead diacetate (EXP,ISO)

lead(0) (ISO)

lipoic acid (EXP)

methimazole (EXP)

methylmercury chloride (ISO)

mono(2-ethylhexyl) phthalate (ISO)

N-methyl-4-phenylpyridinium (ISO)

panobinostat (ISO)

phenylmercury acetate (ISO)

quercetin 3-O-beta-D-glucofuranoside (EXP)

quercetin 3-O-beta-D-glucopyranoside (EXP)

resveratrol (ISO)

rotenone (ISO)

SB 431542 (ISO)

silver atom (ISO)

silver(0) (ISO)

sodium arsenite (ISO)

sulfadimethoxine (EXP)

Theaflavin 3,3'-digallate (ISO)

titanium dioxide (ISO)

tributylstannane (EXP)

trichloroethene (EXP)

trichostatin A (ISO)

triclosan (ISO)

valproic acid (ISO)

XAV939 (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

animal organ morphogenesis (ISO)

anterior/posterior pattern specification (ISO)

axon guidance (IEA,ISO)

cell differentiation (ISO)

cell fate commitment (ISO)

cell fate specification (ISO)

cellular response to leukemia inhibitory factor (ISO)

central nervous system development (ISO)

diencephalon morphogenesis (IEA,ISO)

dopaminergic neuron differentiation (IEA,ISO)

dorsal/ventral pattern formation (ISO)

endoderm development (ISO)

eye photoreceptor cell fate commitment (ISO)

forebrain development (ISO)

inner ear morphogenesis (IEA,ISO)

metencephalon development (IEA,ISO)

midbrain development (IEA,ISO)

neuron differentiation (ISO)

neuron fate commitment (ISO)

neuron fate determination (ISO)

oligodendrocyte differentiation (ISO)

positive regulation of DNA-templated transcription (ISO)

positive regulation of embryonic development (ISO)

positive regulation of gastrulation (ISO)

positive regulation of transcription by RNA polymerase II (IEA,ISO)

primitive streak formation (ISO)

protein-containing complex assembly (IEA,ISO)

regulation of DNA-templated transcription (IEA)

regulation of transcription by RNA polymerase II (ISO)

somite rostral/caudal axis specification (ISO)

telencephalon regionalization (ISO)

Cellular Component

cytoplasm (ISO)

growth cone (IEA,ISO)

nucleoplasm (IEA,ISO)

nucleus (IEA,ISO)

protein-containing complex (IEA,ISO)

transcription regulator complex (ISO)

Molecular Function

DNA binding (IEA)

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

DNA-binding transcription factor activity (IEA)

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

protein binding (ISO)

RNA polymerase II cis-regulatory region sequence-specific DNA binding (IEA,ISO)

sequence-specific double-stranded DNA binding (IEA,ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	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.
2.	Rat ISS GO annotations from GOA human gene data--August 2006	GOA data from the GO Consortium
3.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
4.	OMIM Disease Annotation Pipeline	OMIM Disease Annotation Pipeline
5.	GOA pipeline	RGD automated data pipeline
6.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:8613727	PMID:9501024	PMID:10225993	PMID:10891582	PMID:11291865	PMID:11412024	PMID:11731459	PMID:12559959	PMID:12652306	PMID:14625556	PMID:15105370	PMID:15201223
PMID:15201224	PMID:15888661	PMID:15890343	PMID:15917450	PMID:16267555	PMID:16339193	PMID:16539743	PMID:17499638	PMID:17936272	PMID:19592574	PMID:19796622	PMID:19951692
PMID:20439489	PMID:20530484	PMID:20816794	PMID:22992956	PMID:23056351	PMID:24399192	PMID:26166575	PMID:26494787	PMID:26985665	PMID:30451368	PMID:30803008

Genomics

Comparative Map Data

Otx2
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	15	24,422,876 - 24,432,709 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	15	24,422,876 - 24,432,472 (-)	Ensembl				GRCr8
mRatBN7.2	15	21,942,233 - 21,953,034 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	15	21,943,191 - 21,953,416 (-)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	15	24,723,960 - 24,733,547 (-)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	15	25,681,846 - 25,691,428 (-)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	15	23,932,468 - 23,942,055 (-)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Dahl_SR_JrHsd	15	23,140,545 - 23,150,145 (-)	NCBI		Dahl_SR_JrHsd
Lyon_Normotensive	15	23,047,090 - 23,056,692 (-)	NCBI		Lyon_Normotensive
Lyon_Hypertensive	15	23,150,180 - 23,159,782 (-)	NCBI		Lyon_Hypertensive
F344_StmMcwi	15	23,751,487 - 23,761,089 (-)	NCBI		F344_StmMcwi
Rnor_6.0	15	25,500,037 - 25,511,619 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	15	25,517,721 - 25,521,393 (-)	Ensembl			rn6	Rnor6.0
Rnor_6.0 Ensembl	15	25,502,019 - 25,505,691 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	15	29,425,136 - 29,435,678 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	15	24,622,851 - 24,632,435 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	15	22,321,144 - 22,330,728 (-)	NCBI		Celera
RGSC_v3.1	15	24,638,550 - 24,643,418 (-)	NCBI
Cytogenetic Map	15	p14	NCBI

OTX2
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	14	56,799,905 - 56,810,479 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	14	56,799,905 - 56,816,693 (-)	Ensembl			hg38	GRCh38
GRCh37	14	57,266,623 - 57,277,197 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	14	56,337,178 - 56,346,937 (-)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	14	56,337,179 - 56,342,098	NCBI
Celera	14	37,316,938 - 37,326,697 (-)	NCBI		Celera
Cytogenetic Map	14	q22.3	NCBI
HuRef	14	37,431,939 - 37,441,708 (-)	NCBI		HuRef
CHM1_1	14	57,206,163 - 57,215,915 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	14	51,005,697 - 51,016,270 (-)	NCBI		T2T-CHM13v2.0

Otx2
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	14	48,894,238 - 48,905,101 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	14	48,895,134 - 48,911,276 (-)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	14	48,656,781 - 48,667,644 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	14	48,657,677 - 48,673,819 (-)	Ensembl			mm10	GRCm38
MGSCv37	14	49,277,846 - 49,282,547 (-)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	14	47,579,630 - 47,587,057 (-)	NCBI		MGSCv36	mm8
Celera	14	44,858,278 - 44,862,991 (-)	NCBI		Celera
Cytogenetic Map	14	C1	NCBI
cM Map	14	25.36	NCBI

Otx2
(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_004955466	10,755,012 - 10,765,095 (-)	Ensembl
ChiLan1.0	NW_004955466	10,755,143 - 10,764,957 (-)	NCBI	ChiLan1.0	ChiLan1.0

OTX2
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	15	57,906,663 - 57,917,326 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	14	57,123,178 - 57,133,842 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	14	37,370,926 - 37,381,610 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	14	55,641,349 - 55,651,012 (-)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	14	55,641,349 - 55,651,012 (-)	Ensembl			panPan2	panpan1.1

OTX2
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	8	32,435,169 - 32,445,093 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	8	32,435,863 - 32,445,446 (-)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	8	32,203,297 - 32,213,040 (-)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	8	32,685,680 - 32,695,437 (-)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	8	32,686,362 - 32,695,873 (-)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	8	32,288,616 - 32,298,366 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	8	32,364,566 - 32,374,316 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	8	32,740,360 - 32,750,115 (-)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Otx2
(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_024408640	72,742,666 - 72,758,575 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936495	1,432,598 - 1,442,918 (-)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936495	1,433,124 - 1,449,409 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

OTX2
(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	186,028,579 - 186,038,229 (-)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	1	186,028,575 - 186,039,026 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	1	206,642,523 - 206,650,665 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

OTX2
(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	24	33,975,043 - 33,984,816 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666053	22,189,742 - 22,199,522 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Otx2
(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 1.0	NW_004624884	1,830,645 - 1,840,213 (-)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Otx2
(Rattus rattus - black rat)

Black Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Black Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rrattus_CSIRO_v1	12	74,379,903 - 74,384,768 (+)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Otx2
250 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	501
Count of miRNA genes:	243
Interacting mature miRNAs:	301
Transcripts:	ENSRNOT00000018109, ENSRNOT00000074488
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.

QTLs in Region (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1641913	Colcr2	Colorectal carcinoma resistance QTL 2	6.57	0.0197	intestine integrity trait (VT:0010554)	poorly differentiated malignant colorectal tumor number (CMO:0002076)	15	2315759	47315759	Rat
61424	Scl1	Serum cholesterol level QTL 1	7.7	0.001	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	15	19155762	87086765	Rat
10401805	Kidm51	Kidney mass QTL 51			kidney mass (VT:0002707)	both kidneys wet weight (CMO:0000085)	15	2785923	47785923	Rat
5684946	Bss98	Bone structure and strength QTL 98	3.9	0.0026	tibia strength trait (VT:1000284)	tibia ultimate force (CMO:0001734)	15	1	39411584	Rat
1354657	Despr13	Despair related QTL 13		0.0022	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	15	1	32342855	Rat
2317750	Glom26	Glomerulus QTL 26	4.3		urine protein amount (VT:0005160)	urine protein level (CMO:0000591)	15	14926594	71614418	Rat
1641887	Alcrsp14	Alcohol response QTL 14			response to alcohol trait (VT:0010489)	brain neurotensin receptor 1 density (CMO:0002068)	15	1	44836456	Rat
631550	Bw7	Body weight QTL 7	3.6		body mass (VT:0001259)	body weight (CMO:0000012)	15	22336351	67336351	Rat
738017	Hcas7	Hepatocarcinoma susceptibility QTL 7	2.91		liver integrity trait (VT:0010547)	liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)	15	2315759	53331089	Rat
10755503	Bp391	Blood pressure QTL 391	2.37		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	15	22728353	42072050	Rat
5685002	Bss103	Bone structure and strength QTL 103	2.8		tibia strength trait (VT:1000284)	tibia total energy absorbed before break (CMO:0001736)	15	16911521	32439851	Rat
2324620	Coatc3	Coat color QTL 3			coat/hair pigmentation trait (VT:0010463)	pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)	15	22336351	52597086	Rat

Markers in Region

BB256399

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	15	21,943,228 - 21,943,332 (+)	MAPPER	mRatBN7.2
Rnor_6.0	15	25,516,735 - 25,516,838	NCBI	Rnor6.0
Rnor_6.0	15	25,501,033 - 25,501,136	NCBI	Rnor6.0
Rnor_5.0	15	29,426,132 - 29,426,235	UniSTS	Rnor5.0
Rnor_5.0	15	29,441,040 - 29,441,143	UniSTS	Rnor5.0
RGSC_v3.4	15	24,622,889 - 24,622,992	UniSTS	RGSC3.4
Celera	15	22,321,182 - 22,321,285	UniSTS
Cytogenetic Map	15	p14	UniSTS

PMC263842P1

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	15	21,944,349 - 21,944,558 (+)	MAPPER	mRatBN7.2
Rnor_6.0	15	25,517,856 - 25,518,064	NCBI	Rnor6.0
Rnor_6.0	15	25,502,154 - 25,502,362	NCBI	Rnor6.0
Rnor_5.0	15	29,427,253 - 29,427,461	UniSTS	Rnor5.0
Rnor_5.0	15	29,442,161 - 29,442,369	UniSTS	Rnor5.0
RGSC_v3.4	15	24,624,010 - 24,624,218	UniSTS	RGSC3.4
Celera	15	22,322,303 - 22,322,511	UniSTS
Cytogenetic Map	15	p14	UniSTS

PMC304098P1

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	15	21,944,347 - 21,944,558 (+)	MAPPER	mRatBN7.2
Rnor_6.0	15	25,517,854 - 25,518,064	NCBI	Rnor6.0
Rnor_6.0	15	25,502,152 - 25,502,362	NCBI	Rnor6.0
Rnor_5.0	15	29,427,251 - 29,427,461	UniSTS	Rnor5.0
Rnor_5.0	15	29,442,159 - 29,442,369	UniSTS	Rnor5.0
RGSC_v3.4	15	24,624,008 - 24,624,218	UniSTS	RGSC3.4
Celera	15	22,322,301 - 22,322,511	UniSTS
Cytogenetic Map	15	p14	UniSTS

RH136748

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	15	21,943,229 - 21,943,414 (+)	MAPPER	mRatBN7.2
Rnor_6.0	15	25,516,736 - 25,516,920	NCBI	Rnor6.0
Rnor_6.0	15	25,501,034 - 25,501,218	NCBI	Rnor6.0
Rnor_5.0	15	29,426,133 - 29,426,317	UniSTS	Rnor5.0
Rnor_5.0	15	29,441,041 - 29,441,225	UniSTS	Rnor5.0
RGSC_v3.4	15	24,622,890 - 24,623,074	UniSTS	RGSC3.4
Celera	15	22,321,183 - 22,321,367	UniSTS
Cytogenetic Map	15	p14	UniSTS

Otx2

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	15	21,946,668 - 21,947,881 (+)	MAPPER	mRatBN7.2
Rnor_6.0	15	25,520,175 - 25,521,387	NCBI	Rnor6.0
Rnor_6.0	15	25,504,473 - 25,505,685	NCBI	Rnor6.0
Rnor_5.0	15	29,429,572 - 29,430,784	UniSTS	Rnor5.0
Rnor_5.0	15	29,444,480 - 29,445,692	UniSTS	Rnor5.0
RGSC_v3.4	15	24,626,329 - 24,627,541	UniSTS	RGSC3.4
Celera	15	22,324,622 - 22,325,834	UniSTS
Cytogenetic Map	15	p14	UniSTS

OTX2_1019

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	15	21,943,622 - 21,944,540 (+)	MAPPER	mRatBN7.2
Rnor_6.0	15	25,517,129 - 25,518,046	NCBI	Rnor6.0
Rnor_6.0	15	25,501,427 - 25,502,344	NCBI	Rnor6.0
Rnor_5.0	15	29,426,526 - 29,427,443	UniSTS	Rnor5.0
Rnor_5.0	15	29,441,434 - 29,442,351	UniSTS	Rnor5.0
RGSC_v3.4	15	24,623,283 - 24,624,200	UniSTS	RGSC3.4
Celera	15	22,321,576 - 22,322,493	UniSTS
Cytogenetic Map	15	p14	UniSTS

Otx2

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	15	21,944,058 - 21,944,513 (+)	MAPPER	mRatBN7.2
Rnor_6.0	15	25,517,565 - 25,518,019	NCBI	Rnor6.0
Rnor_6.0	15	25,501,863 - 25,502,317	NCBI	Rnor6.0
Rnor_5.0	15	29,426,962 - 29,427,416	UniSTS	Rnor5.0
Rnor_5.0	15	29,441,870 - 29,442,324	UniSTS	Rnor5.0
RGSC_v3.4	15	24,623,719 - 24,624,173	UniSTS	RGSC3.4
Celera	15	22,322,012 - 22,322,466	UniSTS
Cytogenetic Map	15	p14	UniSTS

Otx2

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	15	21,944,058 - 21,944,160 (+)	MAPPER	mRatBN7.2
Rnor_6.0	15	25,517,565 - 25,517,666	NCBI	Rnor6.0
Rnor_6.0	15	25,501,863 - 25,501,964	NCBI	Rnor6.0
Rnor_5.0	15	29,426,962 - 29,427,063	UniSTS	Rnor5.0
Rnor_5.0	15	29,441,870 - 29,441,971	UniSTS	Rnor5.0
RGSC_v3.4	15	24,623,719 - 24,623,820	UniSTS	RGSC3.4
Celera	15	22,322,012 - 22,322,113	UniSTS
Cytogenetic Map	15	p14	UniSTS

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Download All Expressed Objects for this Gene

circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	mesenchyme	mesoderm	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	sensory system	visual system
2	63	4	2	1	3	1	23	9	4	59	13	19	1	14	14

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001100566	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_001431421	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_001431422	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006251808	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006251809	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006251810	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006251838	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008770529	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008770530	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017599668	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017599669	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017599670	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017599671	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017599672	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017599673	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017599674	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017599675	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017599676	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017599677	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017599678	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017599679	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017599680	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017599681	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017599682	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039093283	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039093285	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063274232	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_001841259	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CB580080	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH474040	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000015	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	S81922	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000074488 ⟹ ENSRNOP00000064262

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	15	24,422,899 - 24,432,472 (-)	Ensembl
mRatBN7.2 Ensembl	15	21,943,191 - 21,953,416 (-)	Ensembl
Rnor_6.0 Ensembl	15	25,502,019 - 25,505,691 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000085910 ⟹ ENSRNOP00000073390

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	15	24,422,876 - 24,432,460 (-)	Ensembl
mRatBN7.2 Ensembl	15	21,943,191 - 21,952,778 (-)	Ensembl
Rnor_6.0 Ensembl	15	25,517,721 - 25,521,393 (-)	Ensembl

RefSeq Acc Id:

NM_001100566 ⟹ NP_001094036

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	15	24,422,876 - 24,432,460 (-)	NCBI
mRatBN7.2	15	21,943,191 - 21,952,778 (-)	NCBI
Dahl_SR_JrHsd	15	23,140,545 - 23,150,129 (-)	NCBI
Lyon_Normotensive	15	23,047,090 - 23,056,676 (-)	NCBI
Lyon_Hypertensive	15	23,150,180 - 23,159,766 (-)	NCBI
F344_StmMcwi	15	23,751,487 - 23,761,073 (-)	NCBI
Rnor_6.0	15	25,500,995 - 25,510,579 (-)	NCBI
Rnor_5.0	15	29,425,136 - 29,435,678 (-)	NCBI
RGSC_v3.4	15	24,622,851 - 24,632,435 (-)	RGD
Celera	15	22,321,144 - 22,330,728 (-)	RGD

Sequence:

show sequence

AGCGGAACCTTCCTCAGCTCCAACTCAGCCTCCACTCTTATTAAAAAATAAAAATCGCTAAAGG
AGCGCAGTCGCCACATCCACTTTGATAGCTGGCTACTTGGAATTTTGAAGGATAATTTGATTTT
TTTTTTTCTTTTCAAGCGTCCAATGCGGCTTTAAGGAGTGCGGCTCCACCAACCCGGGAACTGC
ACACTGAGGTCGGGGCTCCTGGTCCAGATCACCCGGCCGAGGCCGCTAGTTGGACAGGTTTTAA
AGGCGACTCTGCCTAGTGTGGTTCAGGGGACGCGCGCCCCAGCCTCCGCGCGCACCTGGAGCGG
CCAGAGTTCCGTCACTCCAAATCCACCCACCAAGGACCCTGACCCTGTCCACTCCAGGCGAATC
GAGACCGTCCGGCTGGGTCCCCCCAATTTGGGCCGACTTTGCGCCTCCAAACAACCTTAGCATG
ATGTCTTATCTAAAGCAACCGCCTTACGCAGTCAATGGGCTGAGTCTGACCACTTCGGGTATGG
ACTTGCTGCATCCCTCCGTGGGCTACCCGGCCACTCCCCGGAAACAGCGGAGGGAGAGGACTAC
TTTCACGAGGGCACAACTTGACGTTCTGGAAGCTCTGTTTGCCAAGACCCGGTACCCAGACATC
TTCATGCGGGAGGAGGTAGCACTGAAAATCAACTTGCCAGAGTCCAGGGTGCAGGTATGGTTTA
AGAATCGAAGAGCTAAGTGCCGTCAGCAACAGCAGCAGCAACAGAACGGAGGTCAGAACAAAGT
GAGACCTGCCAAAAAGAAGACCTCCCCAGCTCGGGAAGTGAGTTCAGAGAGTGGAACAAGTGGC
CAGTTCACTCCCCCCTCTAGTACCTCAGTCCCAACCATTGCCAGCAGCAGTGCTCCAGTGTCTA
TCTGGAGCCCGGCCTCCATCTCCCCACTGTCTGACCCCTTGTCCACCTCCTCCTCCTGCATGCA
GAGGTCCTACCCCATGACCTATACTCAGGCTTCAGGTTATAGTCAAGGCTATGCTGGCTCGACT
TCCTACTTTGGGGGCATGGACTGTGGATCTTACTTGACCCCTATGCATCACCAGCTTCCTGGAC
CAGGGGCCACACTCAGTCCCATGGGTACCAATGCTGTTACCAGCCACCTCAATCAGTCCCCAGC
TTCTCTTTCCACCCAGGGATATGGAGCTTCAAGCTTGGGTTTTAACTCAACCACTGATTGCTTG
GATTATAAGGACCAAACTGCCTCTTGGAAGCTTAACTTCAATGCTGACTGCTTGGATTATAAGG
ATCAGACATCCTCATGGAAATTCCAGGTTTTGTGAAGACCCGTAGGAGCTATTTTTTCTTTTTT
TGTGGGTGATTTTTAAATATGCTGGGCTGGACATTCCAGTTTTAGCCAGGCATTGGTTAAAAGA
GTTAGATGGGATGATGCTCTCAGACTCCTGGTCAAAGTTACCGAGAGGCATAGAAGGAAAAAGG
AAGGGCCTTAGAAGGGTCCATCAACCAGCAACCTGAGATGGATAAACTAATCTACTTAAGATTC
TGTTATAGTTCTAGATCATTGGTTTTTCTGATTTGCAAATGATTGATCCAAATATATTCTAGCA
ACACGCAACCAAACACCACTCCAAGCGAAAATCAAACACAACTGAGTAGGGGAGGGAAGGTCAT
GGCCTTCAAAGCAGGCGTGATCTGATGTTTTAGCCAATCTTTGGTTGACTCTTAGGAATGGACA
ATGTCCCAAGCTCATTCACGTTTCATGACCAACTGGTAGTTGGCACTGAAAACCTTTTCAGGGC
TGTGTGAATTGTGCGACTGATTGTCCTAGATGCACTACTTTATTTAAAAGAAAAAAAAAAAAAG
CTGACGCTCATACGGAGTCAATATGTAGTTTAAGAGACAATCAGTGTGTGTCTTATATAAATGG
TACATCTGTGGTTTTTAATCTGTGCTAGACTTCAAAACTGTGATCTCCTGTTATTGTATGCAAC
CTTGAACTCCACCTCCACAGGGGTTCTTCTGTGATTAAATAGGTTATAATTATAAGCAAAAATT
CAGAGCAACTGAATACTGATCTAGAACGATTTACCTTTGGCTGGAGGTGAGCTGCCCTGCTGTC
TCTGGACAAGGATCGAGAAGAAGCAAAAGGAGCCTAATTCGCCCGTAATTTAACGTTGGTAAGC
CTGGCAGTCAAAAAGACATTGGTCAATTGCTCTGACCCTGATGAATTTTAAACTGAGATCATTG
TCATTTATGCTTGCAGATGTTAACTGGAAGTTATATATGCATAAACCCTTCCTGGATTTGGCTG
ATATGTATAATTATATTAAAATGGTTCTAGCACAA

hide sequence

RefSeq Acc Id:

NM_001431421 ⟹ NP_001418350

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Dahl_SR_JrHsd	15	23,140,545 - 23,150,145 (-)	NCBI
Lyon_Normotensive	15	23,047,090 - 23,056,692 (-)	NCBI
Lyon_Hypertensive	15	23,150,180 - 23,159,782 (-)	NCBI
F344_StmMcwi	15	23,751,487 - 23,761,089 (-)	NCBI

RefSeq Acc Id:

NM_001431422 ⟹ NP_001418351

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Dahl_SR_JrHsd	15	23,140,545 - 23,150,145 (-)	NCBI
Lyon_Normotensive	15	23,047,090 - 23,056,692 (-)	NCBI
Lyon_Hypertensive	15	23,150,180 - 23,159,782 (-)	NCBI
F344_StmMcwi	15	23,751,487 - 23,761,089 (-)	NCBI

RefSeq Acc Id:

XM_006251838 ⟹ XP_006251900

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	15	24,422,876 - 24,432,694 (-)	NCBI
mRatBN7.2	15	21,942,233 - 21,953,028 (-)	NCBI

Sequence:

show sequence

AAAAAGAAGAAGAAGAAAAAAGAAAGAAAAAAAAGGAGGCTAAGAAAGGGATATAAAAGAAGAA
GAAAAGACCGAAGAGGGAGGCCTTCCTGTCCATCATTTTAATTACACAATTAGTTCACATGCTC
GGGCCCATAATGTATATTTTAAGCGCAGCCCAGTGTTTTAAAGAACGTTCTGGTAGTGTCGGAG
GCCTGGATTTCTTGCCTGCTCTTCCCCCCGTGCAGCAGCGGCCTGTTTTCCTCCCCCTGTTGTG
TGTTTTTATTATTTTCCCTCTGGCTTAGATGTGTCAATCATTCTCTCTCTGCCATTGGTTGGAG
AGTTTGCGTCAAAAAGTTGCCAGAGAGGCGCTTTCTCAGCAAATCTCCCTGAGAGCGGAACCTT
CCTCAGCTCCAACTCAGCCTCCACTCTTATTAAAAAATAAAAATCGCTAAAGGAGCGCAGTCGC
CACATCCACTTTGATAGCTGGCTACTTGGAATTTTGAAGGATAATTTGATTTTTTTTTTTCTTT
TCAAGCGTCCAATGCGGCTTTAAGTTCCGTCACTCCAAATCCACCCACCAAGGACCCTGACCCT
GTCCACTCCAGGCGAATCGAGACCGTCCGGCTGGGTCCCCCCAATTTGGGCCGACTTTGCGCCT
CCAAACAACCTTAGCATGATGTCTTATCTAAAGCAACCGCCTTACGCAGTCAATGGGCTGAGTC
TGACCACTTCGGGTATGGACTTGCTGCATCCCTCCGTGGGCTACCCGGCCACTCCCCGGAAACA
GCGGAGGGAGAGGACTACTTTCACGAGGGCACAACTTGACGTTCTGGAAGCTCTGTTTGCCAAG
ACCCGGTACCCAGACATCTTCATGCGGGAGGAGGTAGCACTGAAAATCAACTTGCCAGAGTCCA
GGGTGCAGGTATGGTTTAAGAATCGAAGAGCTAAGTGCCGTCAGCAACAGCAGCAGCAACAGAA
CGGAGGTCAGAACAAAGTGAGACCTGCCAAAAAGAAGACCTCCCCAGCTCGGGAAGTGAGTTCA
GAGAGTGGAACAAGTGGCCAGTTCACTCCCCCCTCTAGTACCTCAGTCCCAACCATTGCCAGCA
GCAGTGCTCCAGTGTCTATCTGGAGCCCGGCCTCCATCTCCCCACTGTCTGACCCCTTGTCCAC
CTCCTCCTCCTGCATGCAGAGGTCCTACCCCATGACCTATACTCAGGCTTCAGGTTATAGTCAA
GGCTATGCTGGCTCGACTTCCTACTTTGGGGGCATGGACTGTGGATCTTACTTGACCCCTATGC
ATCACCAGCTTCCTGGACCAGGGGCCACACTCAGTCCCATGGGTACCAATGCTGTTACCAGCCA
CCTCAATCAGTCCCCAGCTTCTCTTTCCACCCAGGGATATGGAGCTTCAAGCTTGGGTTTTAAC
TCAACCACTGATTGCTTGGATTATAAGGACCAAACTGCCTCTTGGAAGCTTAACTTCAATGCTG
ACTGCTTGGATTATAAGGATCAGACATCCTCATGGAAATTCCAGGTTTTGTGAAGACCCGTAGG
AGCTATTTTTTCTTTTTTTGTGGGTGATTTTTAAATATGCTGGGCTGGACATTCCAGTTTTAGC
CAGGCATTGGTTAAAAGAGTTAGATGGGATGATGCTCTCAGACTCCTGGTCAAAGTTACCGAGA
GGCATAGAAGGAAAAAGGAAGGGCCTTAGAAGGGTCCATCAACCAGCAACCTGAGATGGATAAA
CTAATCTACTTAAGATTCTGTTATAGTTCTAGATCATTGGTTTTTCTGATTTGCAAATGATTGA
TCCAAATATATTCTAGCAACACGCAACCAAACACCACTCCAAGCGAAAATCAAACACAACTGAG
TAGGGGAGGGAAGGTCATGGCCTTCAAAGCAGGCGTGATCTGATGTTTTAGCCAATCTTTGGTT
GACTCTTAGGAATGGACAATGTCCCAAGCTCATTCACGTTTCATGACCAACTGGTAGTTGGCAC
TGAAAACCTTTTCAGGGCTGTGTGAATTGTGCGACTGATTGTCCTAGATGCACTACTTTATTTA
AAAGAAAAAAAAAAAAAGCTGACGCTCATACGGAGTCAATATGTAGTTTAAGAGACAATCAGTG
TGTGTCTTATATAAATGGTACATCTGTGGTTTTTAATCTGTGCTAGACTTCAAAACTGTGATCT
CCTGTTATTGTATGCAACCTTGAACTCCACCTCCACAGGGGTTCTTCTGTGATTAAATAGGTTA
TAATTATAAGCAAAAATTCAGAGCAACTGAATACTGATCTAGAACGATTTACCTTTGGCTGGAG
GTGAGCTGCCCTGCTGTCTCTGGACAAGGATCGAGAAGAAGCAAAAGGAGCCTAATTCGCCCGT
AATTTAACGTTGGTAAGCCTGGCAGTCAAAAAGACATTGGTCAATTGCTCTGACCCTGATGAAT
TTTAAACTGAGATCATTGTCATTTATGCTTGCAGATGTTAACTGGAAGTTATATATGCATAAAC
CCTTCCTGGATTTGGCTGATATGTATAATTATATTAAAATGGTTCTAGCACAACATTGGGTCCA
GTTTAATTTTACACCATTGCTAATGAAGGAAAAGCCCTGTGTTCAGCTTCACTTCTGACACGTT
TATTGGAAGGCAGAGAAGACAATGGCGTTTTACACCTTCGTTTTTTAGTTTTTCTCTTGCTGAT
CTGTGAATGAACTAGACGGGAATGACAGTGATTTGGAAACGTCAGTGACTTCCCTCAGGATTGT
TCCTAACTGGAAGTCACTCGTCCCAGTCAGCCATTAACATCGGTTCCTCCCCTGATACAAGCTT
GACTTGCTAGGCACCTTGTCAGTGTGGACCAGTAGAGTTTTGGTGTTGTTGTTTTGTGGGGCAT
GGGGGTGGACTGGAATAATTCAGAAAGTAAGAATGTCAAGAATTTCTTGTTTCAGTTCTCTAAG
GGCATTTTCCCCCCTTTTCCTTAAAAAAAAGGCCGAGGTAAAGATGAGAGGAGGAAGTGCAATC
AGAATCTGAATGGAACCCAGGGATTTCTTAACAAAAGAGAAAACTTTAAAAAACCTATAGTTTC
AGGAGTCAAACACCCGCCATCAGTGCTGGGTGTGTGCGTGTGCGTGTGCGTGTGTGTGTGTGTG
TGTGTGTGTGTGTGTGTTTGTGTGTGTGTGTGTTTGTGTTTGCTGGGCAGGGGAAGAGTCCCAT
TTTTGTTGTAGGAGTTACTAGAAAGGACATGACCCATGGTCCTTGGTGCTCCTCTGGTAAAAAC
TACTTAATTTCATCTTAAGCATCTTGTGTTCTTATTTGACCAAAATTCAATGGCTGTTTATTGT
AGCCCTGCAAATGAAGGTTGCCAGTTGTAACCATTTTGTTTTCTGGCCATTTCAGTTCCCATCC
CTAGCTGTGCTTTATGAATCCCATCTAGTCTTGGCTTAATGAGTAAAAAAAATGTTTTATTACT
GAATAAAACTCTACAGCCACCAACTGTCAAGTTGGATGGGTAGATCCTGGA

hide sequence

RefSeq Acc Id:

XM_039093283 ⟹ XP_038949211

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	15	24,422,876 - 24,432,709 (-)	NCBI
mRatBN7.2	15	21,942,233 - 21,953,034 (-)	NCBI

RefSeq Acc Id:

XM_039093285 ⟹ XP_038949213

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	15	24,422,876 - 24,432,694 (-)	NCBI
mRatBN7.2	15	21,942,233 - 21,953,028 (-)	NCBI

RefSeq Acc Id:

XM_063274232 ⟹ XP_063130302

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	15	24,422,876 - 24,427,692 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001094036	(Get FASTA)	NCBI Sequence Viewer
	NP_001418350	(Get FASTA)	NCBI Sequence Viewer
	NP_001418351	(Get FASTA)	NCBI Sequence Viewer
	XP_006251900	(Get FASTA)	NCBI Sequence Viewer
	XP_038949211	(Get FASTA)	NCBI Sequence Viewer
	XP_038949213	(Get FASTA)	NCBI Sequence Viewer
	XP_063130302	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAP32271	(Get FASTA)	NCBI Sequence Viewer
	EDL88378	(Get FASTA)	NCBI Sequence Viewer
	EDL88379	(Get FASTA)	NCBI Sequence Viewer
	EDL88380	(Get FASTA)	NCBI Sequence Viewer
	EDL88381	(Get FASTA)	NCBI Sequence Viewer
	EDL88382	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000064262
	ENSRNOP00000073390
GenBank Protein	Q64201	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_001094036 ⟸ NM_001100566

- UniProtKB:

F2Z3S7 (UniProtKB/TrEMBL), A6KE75 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MMSYLKQPPYAVNGLSLTTSGMDLLHPSVGYPATPRKQRRERTTFTRAQLDVLEALFAKTRYPD
IFMREEVALKINLPESRVQVWFKNRRAKCRQQQQQQQNGGQNKVRPAKKKTSPAREVSSESGTS
GQFTPPSSTSVPTIASSSAPVSIWSPASISPLSDPLSTSSSCMQRSYPMTYTQASGYSQGYAGS
TSYFGGMDCGSYLTPMHHQLPGPGATLSPMGTNAVTSHLNQSPASLSTQGYGASSLGFNSTTDC
LDYKDQTASWKLNFNADCLDYKDQTSSWKFQVL

hide sequence

Ensembl Acc Id:

ENSRNOP00000064262 ⟸ ENSRNOT00000074488

RefSeq Acc Id:	XP_038949211 ⟸ XM_039093283
- Peptide Label:	isoform X1
- UniProtKB:	M0R4H6 (UniProtKB/TrEMBL)

RefSeq Acc Id:

XP_006251900 ⟸ XM_006251838

- Peptide Label:

isoform X2

- Sequence:

show sequence

MMSYLKQPPYAVNGLSLTTSGMDLLHPSVGYPATPRKQRRERTTFTRAQLDVLEALFAKTRYPD
IFMREEVALKINLPESRVQVWFKNRRAKCRQQQQQQQNGGQNKVRPAKKKTSPAREVSSESGTS
GQFTPPSSTSVPTIASSSAPVSIWSPASISPLSDPLSTSSSCMQRSYPMTYTQASGYSQGYAGS
TSYFGGMDCGSYLTPMHHQLPGPGATLSPMGTNAVTSHLNQSPASLSTQGYGASSLGFNSTTDC
LDYKDQTASWKLNFNADCLDYKDQTSSWKFQVL

hide sequence

RefSeq Acc Id:	XP_038949213 ⟸ XM_039093285
- Peptide Label:	isoform X2

Ensembl Acc Id:

ENSRNOP00000073390 ⟸ ENSRNOT00000085910

RefSeq Acc Id:	XP_063130302 ⟸ XM_063274232
- Peptide Label:	isoform X2
- UniProtKB:	A6KE75 (UniProtKB/TrEMBL), F2Z3S7 (UniProtKB/TrEMBL)

RefSeq Acc Id:

NP_001418350 ⟸ NM_001431421

RefSeq Acc Id:

NP_001418351 ⟸ NM_001431422

Protein Domains

Homeobox

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q64201-F1-model_v2	AlphaFold	Q64201	1-70	view protein structure

Transcriptome

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1305705	AgrOrtholog
BioCyc Gene	G2FUF-14116	BioCyc
Ensembl Genes	ENSRNOG00000048322	Ensembl
	ENSRNOG00000056186	Ensembl
	ENSRNOG00000065063	Ensembl, ENTREZGENE
Ensembl Transcript	ENSRNOT00000074488	ENTREZGENE
	ENSRNOT00000085910	ENTREZGENE
InterPro	Otx_TF_C	UniProtKB/Swiss-Prot
NCBI Gene	305858	ENTREZGENE
Pfam	TF_Otx	UniProtKB/Swiss-Prot
PhenoGen	Otx2	PhenoGen
RatGTEx	ENSRNOG00000048322	RatGTEx
	ENSRNOG00000056186	RatGTEx
	ENSRNOG00000065063	RatGTEx
UniProt	A6KE75	ENTREZGENE, UniProtKB/TrEMBL
	A6KE77_RAT	UniProtKB/TrEMBL
	F2Z3S7	ENTREZGENE, UniProtKB/TrEMBL
	M0R4H6	ENTREZGENE, UniProtKB/TrEMBL
	OTX2_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2021-03-09	Otx2	orthodenticle homeobox 2	LOC100911492	homeobox protein OTX2-like	Data merged from RGD:6492889	737654	PROVISIONAL
2012-07-05	LOC100911492	homeobox protein OTX2-like			Symbol and Name status set to provisional	70820	PROVISIONAL
2010-04-23	Otx2	orthodenticle homeobox 2	Otx2	orthodenticle homolog 2 (Drosophila)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2005-12-06	Otx2	orthodenticle homolog 2 (Drosophila)	Otx2_predicted	orthodenticle homolog 2 (Drosophila) (predicted)	Symbol and Name updated	1559027	APPROVED
2005-01-12	Otx2_predicted	orthodenticle homolog 2 (Drosophila) (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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