Otx2 (orthodenticle homeobox 2) - Rat Genome Database

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Gene: Otx2 (orthodenticle homeobox 2) Rattus norvegicus
Analyze
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 cellular response to leukemia inhibitory factor; 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 panhypopituitarism 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
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81524,422,876 - 24,432,709 (-)NCBIGRCr8
mRatBN7.21521,942,233 - 21,953,034 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1521,943,191 - 21,953,416 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1524,723,960 - 24,733,547 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01525,681,846 - 25,691,428 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01523,932,468 - 23,942,055 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01525,500,037 - 25,511,619 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1525,502,019 - 25,505,691 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl1525,517,721 - 25,521,393 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01529,425,136 - 29,435,678 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41524,622,851 - 24,632,435 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11524,638,550 - 24,643,418 (-)NCBI
Celera1522,321,144 - 22,330,728 (-)NCBICelera
Cytogenetic Map15p14NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

Cellular Component

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 AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81524,422,876 - 24,432,709 (-)NCBIGRCr8
mRatBN7.21521,942,233 - 21,953,034 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1521,943,191 - 21,953,416 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1524,723,960 - 24,733,547 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01525,681,846 - 25,691,428 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01523,932,468 - 23,942,055 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01525,500,037 - 25,511,619 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1525,502,019 - 25,505,691 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl1525,517,721 - 25,521,393 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01529,425,136 - 29,435,678 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41524,622,851 - 24,632,435 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11524,638,550 - 24,643,418 (-)NCBI
Celera1522,321,144 - 22,330,728 (-)NCBICelera
Cytogenetic Map15p14NCBI
OTX2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381456,799,905 - 56,810,479 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1456,799,905 - 56,816,693 (-)EnsemblGRCh38hg38GRCh38
GRCh371457,266,623 - 57,277,197 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361456,337,178 - 56,346,937 (-)NCBINCBI36Build 36hg18NCBI36
Build 341456,337,179 - 56,342,098NCBI
Celera1437,316,938 - 37,326,697 (-)NCBICelera
Cytogenetic Map14q22.3NCBI
HuRef1437,431,939 - 37,441,708 (-)NCBIHuRef
CHM1_11457,206,163 - 57,215,915 (-)NCBICHM1_1
T2T-CHM13v2.01451,005,697 - 51,016,270 (-)NCBIT2T-CHM13v2.0
Otx2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391448,894,238 - 48,905,101 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1448,895,134 - 48,911,276 (-)EnsemblGRCm39 Ensembl
GRCm381448,656,781 - 48,667,644 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1448,657,677 - 48,673,819 (-)EnsemblGRCm38mm10GRCm38
MGSCv371449,277,846 - 49,282,547 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361447,579,630 - 47,587,057 (-)NCBIMGSCv36mm8
Celera1444,858,278 - 44,862,991 (-)NCBICelera
Cytogenetic Map14C1NCBI
cM Map1425.36NCBI
Otx2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495546610,755,012 - 10,765,095 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495546610,755,143 - 10,764,957 (-)NCBIChiLan1.0ChiLan1.0
OTX2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21557,906,663 - 57,917,326 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11457,123,178 - 57,133,842 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01437,370,926 - 37,381,610 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11455,641,349 - 55,651,012 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1455,641,349 - 55,651,012 (-)Ensemblpanpan1.1panPan2
OTX2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1832,435,169 - 32,445,093 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl832,435,863 - 32,445,446 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha832,203,297 - 32,213,040 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0832,685,680 - 32,695,437 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl832,686,362 - 32,695,873 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1832,288,616 - 32,298,366 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0832,364,566 - 32,374,316 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0832,740,360 - 32,750,115 (-)NCBIUU_Cfam_GSD_1.0
Otx2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864072,742,666 - 72,758,575 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364951,432,598 - 1,442,918 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364951,433,124 - 1,449,409 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
OTX2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1186,028,579 - 186,038,229 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11186,028,575 - 186,039,026 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21206,642,523 - 206,650,665 (-)NCBISscrofa10.2Sscrofa10.2susScr3
OTX2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12433,975,043 - 33,984,816 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605322,189,742 - 22,199,522 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Otx2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248841,830,645 - 1,840,213 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Otx2
25 total Variants
miRNA Target Status

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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1641913Colcr2Colorectal carcinoma resistance QTL 26.570.0197intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)15226636822711984Rat
631273Lecl2Lens clarity QTL 20.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)151059608955596089Rat
2300167Bmd63Bone mineral density QTL 635.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151736289773690657Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15142356671Rat
731170Pur3Proteinuria QTL 32.30.0005urine protein amount (VT:0005160)urine protein excretion rate (CMO:0000759)15141686771Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15226636846921453Rat
10755503Bp391Blood pressure QTL 3912.37arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)152024860037896129Rat
2300173Bmd62Bone mineral density QTL 6212.80.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
9589149Insul29Insulin level QTL 299.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)15134723002Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)151985656646187442Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151672552880672115Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1530632945306329Rat
1582251Gluco24Glucose level QTL 243.20.0008blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)15553075650530756Rat
1354657Despr13Despair related QTL 130.0022locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)15129912054Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151249614165205939Rat
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15155302115Rat
631550Bw7Body weight QTL 73.6body mass (VT:0001259)body weight (CMO:0000012)151985656634924750Rat
8552920Pigfal8Plasma insulin-like growth factor 1 level QTL 83blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)15134723002Rat
2293688Bss29Bone structure and strength QTL 295.310.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)151111114256111142Rat
5685002Bss103Bone structure and strength QTL 1032.8tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)151448116528469888Rat
8694361Abfw6Abdominal fat weight QTL 610.20.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)15134723002Rat

Markers in Region
BB256399  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21521,943,228 - 21,943,332 (+)MAPPERmRatBN7.2
Rnor_6.01525,516,735 - 25,516,838NCBIRnor6.0
Rnor_6.01525,501,033 - 25,501,136NCBIRnor6.0
Rnor_5.01529,426,132 - 29,426,235UniSTSRnor5.0
Rnor_5.01529,441,040 - 29,441,143UniSTSRnor5.0
RGSC_v3.41524,622,889 - 24,622,992UniSTSRGSC3.4
Celera1522,321,182 - 22,321,285UniSTS
Cytogenetic Map15p14UniSTS
PMC263842P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21521,944,349 - 21,944,558 (+)MAPPERmRatBN7.2
Rnor_6.01525,517,856 - 25,518,064NCBIRnor6.0
Rnor_6.01525,502,154 - 25,502,362NCBIRnor6.0
Rnor_5.01529,427,253 - 29,427,461UniSTSRnor5.0
Rnor_5.01529,442,161 - 29,442,369UniSTSRnor5.0
RGSC_v3.41524,624,010 - 24,624,218UniSTSRGSC3.4
Celera1522,322,303 - 22,322,511UniSTS
Cytogenetic Map15p14UniSTS
PMC304098P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21521,944,347 - 21,944,558 (+)MAPPERmRatBN7.2
Rnor_6.01525,517,854 - 25,518,064NCBIRnor6.0
Rnor_6.01525,502,152 - 25,502,362NCBIRnor6.0
Rnor_5.01529,427,251 - 29,427,461UniSTSRnor5.0
Rnor_5.01529,442,159 - 29,442,369UniSTSRnor5.0
RGSC_v3.41524,624,008 - 24,624,218UniSTSRGSC3.4
Celera1522,322,301 - 22,322,511UniSTS
Cytogenetic Map15p14UniSTS
RH136748  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21521,943,229 - 21,943,414 (+)MAPPERmRatBN7.2
Rnor_6.01525,516,736 - 25,516,920NCBIRnor6.0
Rnor_6.01525,501,034 - 25,501,218NCBIRnor6.0
Rnor_5.01529,426,133 - 29,426,317UniSTSRnor5.0
Rnor_5.01529,441,041 - 29,441,225UniSTSRnor5.0
RGSC_v3.41524,622,890 - 24,623,074UniSTSRGSC3.4
Celera1522,321,183 - 22,321,367UniSTS
Cytogenetic Map15p14UniSTS
Otx2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21521,946,668 - 21,947,881 (+)MAPPERmRatBN7.2
Rnor_6.01525,520,175 - 25,521,387NCBIRnor6.0
Rnor_6.01525,504,473 - 25,505,685NCBIRnor6.0
Rnor_5.01529,429,572 - 29,430,784UniSTSRnor5.0
Rnor_5.01529,444,480 - 29,445,692UniSTSRnor5.0
RGSC_v3.41524,626,329 - 24,627,541UniSTSRGSC3.4
Celera1522,324,622 - 22,325,834UniSTS
Cytogenetic Map15p14UniSTS
OTX2_1019  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21521,943,622 - 21,944,540 (+)MAPPERmRatBN7.2
Rnor_6.01525,517,129 - 25,518,046NCBIRnor6.0
Rnor_6.01525,501,427 - 25,502,344NCBIRnor6.0
Rnor_5.01529,426,526 - 29,427,443UniSTSRnor5.0
Rnor_5.01529,441,434 - 29,442,351UniSTSRnor5.0
RGSC_v3.41524,623,283 - 24,624,200UniSTSRGSC3.4
Celera1522,321,576 - 22,322,493UniSTS
Cytogenetic Map15p14UniSTS
Otx2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21521,944,058 - 21,944,513 (+)MAPPERmRatBN7.2
Rnor_6.01525,517,565 - 25,518,019NCBIRnor6.0
Rnor_6.01525,501,863 - 25,502,317NCBIRnor6.0
Rnor_5.01529,426,962 - 29,427,416UniSTSRnor5.0
Rnor_5.01529,441,870 - 29,442,324UniSTSRnor5.0
RGSC_v3.41524,623,719 - 24,624,173UniSTSRGSC3.4
Celera1522,322,012 - 22,322,466UniSTS
Cytogenetic Map15p14UniSTS
Otx2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21521,944,058 - 21,944,160 (+)MAPPERmRatBN7.2
Rnor_6.01525,517,565 - 25,517,666NCBIRnor6.0
Rnor_6.01525,501,863 - 25,501,964NCBIRnor6.0
Rnor_5.01529,426,962 - 29,427,063UniSTSRnor5.0
Rnor_5.01529,441,870 - 29,441,971UniSTSRnor5.0
RGSC_v3.41524,623,719 - 24,623,820UniSTSRGSC3.4
Celera1522,322,012 - 22,322,113UniSTS
Cytogenetic Map15p14UniSTS


Expression

RNA-SEQ Expression

ectoderm
endocrine system
endoderm
exocrine system
hepatobiliary system
mesenchyme
nervous system
renal system
reproductive system
respiratory system
22 4 2 1 1 5 22 4 16 1

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 AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1521,943,191 - 21,953,416 (-)Ensembl
Rnor_6.0 Ensembl1525,502,019 - 25,505,691 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000085910   ⟹   ENSRNOP00000073390
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1521,943,191 - 21,952,778 (-)Ensembl
Rnor_6.0 Ensembl1525,517,721 - 25,521,393 (-)Ensembl
RefSeq Acc Id: NM_001100566   ⟹   NP_001094036
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81524,422,876 - 24,432,460 (-)NCBI
mRatBN7.21521,943,191 - 21,952,778 (-)NCBI
Rnor_6.01525,500,995 - 25,510,579 (-)NCBI
Rnor_5.01529,425,136 - 29,435,678 (-)NCBI
RGSC_v3.41524,622,851 - 24,632,435 (-)RGD
Celera1522,321,144 - 22,330,728 (-)RGD
Sequence:
RefSeq Acc Id: XM_006251838   ⟹   XP_006251900
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81524,422,876 - 24,432,694 (-)NCBI
mRatBN7.21521,942,233 - 21,953,028 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039093283   ⟹   XP_038949211
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81524,422,876 - 24,432,709 (-)NCBI
mRatBN7.21521,942,233 - 21,953,034 (-)NCBI
RefSeq Acc Id: XM_039093285   ⟹   XP_038949213
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81524,422,876 - 24,432,694 (-)NCBI
mRatBN7.21521,942,233 - 21,953,028 (-)NCBI
RefSeq Acc Id: XM_063274232   ⟹   XP_063130302
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81524,422,876 - 24,427,692 (-)NCBI
RefSeq Acc Id: NP_001094036   ⟸   NM_001100566
- UniProtKB: F2Z3S7 (UniProtKB/TrEMBL),   A6KE75 (UniProtKB/TrEMBL)
- 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:
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)
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

Database Acc Id Source(s)
AGR Gene RGD:1305705 AgrOrtholog
BioCyc Gene G2FUF-14116 BioCyc
Ensembl Genes ENSRNOG00000048322 Ensembl
  ENSRNOG00000056186 Ensembl
  ENSRNOG00000065063 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000074488.3 UniProtKB/TrEMBL
  ENSRNOT00000085910.2 UniProtKB/TrEMBL
Gene3D-CATH Homeodomain-like UniProtKB/TrEMBL
InterPro Homeobox UniProtKB/TrEMBL
  Homeobox_CS UniProtKB/TrEMBL
  Homeodomain-like UniProtKB/TrEMBL
  Otx2_TF UniProtKB/TrEMBL
  Otx_TF UniProtKB/TrEMBL
  Otx_TF_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:305858 UniProtKB/TrEMBL
NCBI Gene 305858 ENTREZGENE
PANTHER HOMEOBOX PROTEIN UniProtKB/TrEMBL
  HOMEOBOX PROTEIN OTX2 UniProtKB/TrEMBL
Pfam Homeobox UniProtKB/TrEMBL
  TF_Otx UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Otx2 PhenoGen
PRINTS OTX2HOMEOBOX UniProtKB/TrEMBL
  OTXHOMEOBOX UniProtKB/TrEMBL
PROSITE HOMEOBOX_1 UniProtKB/TrEMBL
  HOMEOBOX_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000048322 RatGTEx
  ENSRNOG00000056186 RatGTEx
  ENSRNOG00000065063 RatGTEx
SMART HOX UniProtKB/TrEMBL
Superfamily-SCOP Homeodomain_like UniProtKB/TrEMBL
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