Six3 (SIX homeobox 3) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Six3 (SIX homeobox 3) Rattus norvegicus
Analyze
Symbol: Six3
Name: SIX homeobox 3
RGD ID: 620909
Description: Enables signaling receptor binding activity. Involved in negative regulation of DNA-templated transcription. Predicted to be part of transcription regulator complex. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in holoprosencephaly and holoprosencephaly 2. Orthologous to human SIX3 (SIX homeobox 3); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; ammonium chloride.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: homeobox protein Six3; sine oculis homeobox homolog 3; sine oculis homeobox homolog 3 (Drosophila); sine oculis-related homeobox 3 homolog; sine oculis-related homeobox 3 homolog (Drosophila)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8614,791,937 - 14,796,365 (-)NCBIGRCr8
mRatBN7.269,039,017 - 9,043,336 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl69,036,434 - 9,053,301 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx69,326,170 - 9,330,489 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.069,635,567 - 9,639,890 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.069,156,148 - 9,160,452 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.068,886,730 - 8,891,094 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl68,886,591 - 8,889,925 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.068,778,756 - 8,815,903 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.468,981,995 - 9,019,365 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.169,015,373 - 9,019,374 (+)NCBI
Celera68,770,011 - 8,793,533 (-)NCBICelera
Cytogenetic Map6q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

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. Syndecan-4 associates with alpha-actinin. Greene DK, etal., J Biol Chem 2003 Feb 28;278(9):7617-23. Epub 2002 Dec 18.
4. Functional characterization of SIX3 homeodomain mutations in holoprosencephaly: interaction with the nuclear receptor NR4A3/NOR1. Laflamme C, etal., Hum Mutat. 2004 Dec;24(6):502-8.
5. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
6. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
7. The orphan nuclear receptor NOR-1 interacts with the homeobox containing protein Six3. Ohkura N, etal., Dev Neurosci 2001;23(1):17-24.
8. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
9. GOA pipeline RGD automated data pipeline
10. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
11. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
12. Information Derived from GenBank Report RGD, Sept. 2003
13. Mutations in the homeodomain of the human SIX3 gene cause holoprosencephaly. Wallis DE, etal., Nat Genet. 1999 Jun;22(2):196-8.
Additional References at PubMed
PMID:8814301   PMID:11139622   PMID:11458394   PMID:12050133   PMID:12072567   PMID:12163408   PMID:12441302   PMID:12569128   PMID:14973488   PMID:16024294   PMID:17066077   PMID:17576749  
PMID:17666527   PMID:18094027   PMID:18694563   PMID:18775421   PMID:18791198   PMID:18836447   PMID:19606496   PMID:20890044   PMID:21525287   PMID:22071110   PMID:36917311  


Genomics

Comparative Map Data
Six3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8614,791,937 - 14,796,365 (-)NCBIGRCr8
mRatBN7.269,039,017 - 9,043,336 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl69,036,434 - 9,053,301 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx69,326,170 - 9,330,489 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.069,635,567 - 9,639,890 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.069,156,148 - 9,160,452 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.068,886,730 - 8,891,094 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl68,886,591 - 8,889,925 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.068,778,756 - 8,815,903 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.468,981,995 - 9,019,365 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.169,015,373 - 9,019,374 (+)NCBI
Celera68,770,011 - 8,793,533 (-)NCBICelera
Cytogenetic Map6q12NCBI
SIX3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38244,941,702 - 44,946,071 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl244,941,702 - 44,946,071 (+)EnsemblGRCh38hg38GRCh38
GRCh37245,168,841 - 45,173,210 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36245,022,541 - 45,025,894 (+)NCBINCBI36Build 36hg18NCBI36
Build 34245,080,511 - 45,084,092NCBI
Celera245,007,709 - 45,011,888 (+)NCBICelera
Cytogenetic Map2p21NCBI
HuRef244,885,400 - 44,910,885 (+)NCBIHuRef
CHM1_1245,098,943 - 45,103,122 (+)NCBICHM1_1
T2T-CHM13v2.0244,946,967 - 44,951,332 (+)NCBIT2T-CHM13v2.0
Six3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391785,921,036 - 85,933,619 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1785,921,036 - 85,936,730 (+)EnsemblGRCm39 Ensembl
GRCm381785,613,608 - 85,626,191 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1785,613,608 - 85,629,302 (+)EnsemblGRCm38mm10GRCm38
MGSCv371786,020,174 - 86,025,531 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361785,529,160 - 85,532,488 (+)NCBIMGSCv36mm8
Celera1789,974,811 - 89,987,580 (+)NCBICelera
Cytogenetic Map17E4NCBI
cM Map1755.42NCBI
Six3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544111,966,389 - 11,979,466 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544111,966,389 - 11,978,545 (+)NCBIChiLan1.0ChiLan1.0
SIX3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21281,436,292 - 81,469,922 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A81,440,269 - 81,466,464 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A45,038,634 - 45,072,867 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A45,978,828 - 45,988,078 (+)NCBIpanpan1.1PanPan1.1panPan2
SIX3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11047,332,875 - 47,369,359 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1047,332,888 - 47,343,635 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1047,190,442 - 47,227,035 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01048,209,368 - 48,245,952 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1048,209,335 - 48,244,622 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11047,917,957 - 47,954,541 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01048,207,086 - 48,217,927 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01048,389,961 - 48,426,595 (+)NCBIUU_Cfam_GSD_1.0
Six3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629235,674,153 - 35,677,974 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365087,104,066 - 7,107,597 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365087,103,578 - 7,106,588 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SIX3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl395,521,334 - 95,525,436 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1395,521,330 - 95,527,004 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
SIX3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11462,278,124 - 62,292,942 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1462,278,461 - 62,281,127 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604549,599,060 - 49,626,248 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Six3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473826,380,088 - 26,394,252 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473826,379,172 - 26,391,669 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Six3
13 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:41
Count of miRNA genes:36
Interacting mature miRNAs:36
Transcripts:ENSRNOT00000036034
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

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

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


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
8552962Pigfal16Plasma insulin-like growth factor 1 level QTL 169.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)6141223769Rat
7411603Foco13Food consumption QTL 135.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6141223769Rat
1598843Cm63Cardiac mass QTL 632.6heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)6139036266Rat
738024Sach5Saccharine consumption QTL 53.90.00039consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)6143394190Rat
1549905Stresp10Stress response QTL 106.830.0066stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)6127574569Rat
7411542Bw127Body weight QTL 1275.50.001body mass (VT:0001259)body weight gain (CMO:0000420)6141223769Rat
8693699Alc37Alcohol consumption QTL 372.60.224drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)6796416721301982Rat
2293706Bmd20Bone mineral density QTL 204.30.0002femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)6507449719988050Rat
9589048Scfw3Subcutaneous fat weight QTL 34.570.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)6141223769Rat
1331743Uae28Urinary albumin excretion QTL 284.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)6134235784Rat
738023Alc17Alcohol consumption QTL 173.10.003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)6127574569Rat
1354616Despr12Despair related QTL 120.0012locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)6127574569Rat
2293709Bss23Bone structure and strength QTL 235.180.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)6142487980Rat
2293650Bss31Bone structure and strength QTL 315.050.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)6142487980Rat
7411584Foco4Food consumption QTL 44.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6142838846Rat
2300176Bmd51Bone mineral density QTL 5111.70.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)6127574569Rat
1300128Rf16Renal function QTL 163.89renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)6507449734434305Rat
2301972Bp325Blood pressure QTL 3254.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)6172227641Rat
1300164Rf15Renal function QTL 153.12renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)6507449754641141Rat
2293656Bss28Bone structure and strength QTL 286.790.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)6142487980Rat
9589129Insul24Insulin level QTL 2419.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)6141223769Rat
2300190Bmd52Bone mineral density QTL 5211.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)6127574569Rat
1578758Tcas9Tongue tumor susceptibility QTL 93.29tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)6137618905Rat
8693690Alc35Alcohol consumption QTL 352.20.606drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)6796416721301982Rat

Markers in Region
RH143896  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.269,042,209 - 9,042,335 (-)MAPPERmRatBN7.2
Rnor_6.068,887,721 - 8,887,846NCBIRnor6.0
Rnor_5.068,812,530 - 8,812,655UniSTSRnor5.0
RGSC_v3.469,017,153 - 9,017,278UniSTSRGSC3.4
Celera68,772,581 - 8,772,706UniSTS
Cytogenetic Map6q12UniSTS
RH138952  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.269,053,311 - 9,053,477 (-)MAPPERmRatBN7.2
Rnor_6.068,876,565 - 8,876,730NCBIRnor6.0
Rnor_5.068,801,976 - 8,802,141UniSTSRnor5.0
RGSC_v3.469,005,240 - 9,005,405UniSTSRGSC3.4
Celera68,782,949 - 8,783,114UniSTS
Cytogenetic Map6q12UniSTS
Six3  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.269,039,911 - 9,041,283 (-)MAPPERmRatBN7.2
mRatBN7.269,040,122 - 9,040,168 (-)MAPPERmRatBN7.2
mRatBN7.269,039,911 - 9,040,168 (-)MAPPERmRatBN7.2
Rnor_6.068,889,888 - 8,891,305NCBIRnor6.0
Rnor_6.068,891,049 - 8,891,305NCBIRnor6.0
Rnor_5.068,814,697 - 8,816,114UniSTSRnor5.0
Rnor_5.068,815,858 - 8,816,114UniSTSRnor5.0
Cytogenetic Map6q12UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
7 2 8 99 29 29 12 8 12 6 53 29 87 5 25 17

Sequence


Ensembl Acc Id: ENSRNOT00000089174   ⟹   ENSRNOP00000072181
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl69,040,131 - 9,048,968 (-)Ensembl
Rnor_6.0 Ensembl68,886,730 - 8,889,925 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000091510   ⟹   ENSRNOP00000069889
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl69,036,434 - 9,043,336 (-)Ensembl
Rnor_6.0 Ensembl68,886,591 - 8,889,731 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000102969   ⟹   ENSRNOP00000080702
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl69,040,131 - 9,053,301 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000112536   ⟹   ENSRNOP00000084458
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl69,038,880 - 9,043,336 (-)Ensembl
RefSeq Acc Id: NM_023990   ⟹   NP_076480
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8614,791,937 - 14,796,256 (-)NCBI
mRatBN7.269,039,017 - 9,043,336 (-)NCBI
Rnor_6.068,886,730 - 8,891,094 (+)NCBI
Rnor_5.068,778,756 - 8,815,903 (+)NCBI
RGSC_v3.468,981,995 - 9,019,365 (+)RGD
Celera68,770,011 - 8,793,533 (-)RGD
Sequence:
RefSeq Acc Id: XM_063262531   ⟹   XP_063118601
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8614,791,937 - 14,796,365 (-)NCBI
Protein Sequences
Protein RefSeqs NP_076480 (Get FASTA)   NCBI Sequence Viewer  
  XP_063118601 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein BAB11848 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000069889.2
  ENSRNOP00000072181.2
  ENSRNOP00000080702.1
  ENSRNOP00000084458.1
RefSeq Acc Id: NP_076480   ⟸   NM_023990
- UniProtKB: Q9ET75 (UniProtKB/TrEMBL),   A0A0G2K2C0 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000072181   ⟸   ENSRNOT00000089174
Ensembl Acc Id: ENSRNOP00000069889   ⟸   ENSRNOT00000091510
Ensembl Acc Id: ENSRNOP00000084458   ⟸   ENSRNOT00000112536
Ensembl Acc Id: ENSRNOP00000080702   ⟸   ENSRNOT00000102969
RefSeq Acc Id: XP_063118601   ⟸   XM_063262531
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K2C0 (UniProtKB/TrEMBL),   A0A8I6A1B9 (UniProtKB/TrEMBL)
Protein Domains
Homeobox

Transcriptome

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

Promoters
RGD ID:13694384
Promoter ID:EPDNEW_R4907
Type:single initiation site
Name:Six3_1
Description:SIX homeobox 3
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.068,886,672 - 8,886,732EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620909 AgrOrtholog
BioCyc Gene G2FUF-38674 BioCyc
Ensembl Genes ENSRNOG00000057031 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000089174.2 UniProtKB/TrEMBL
  ENSRNOT00000091510.2 UniProtKB/TrEMBL
  ENSRNOT00000102969.1 UniProtKB/TrEMBL
  ENSRNOT00000112536.1 UniProtKB/TrEMBL
Gene3D-CATH Homeodomain-like UniProtKB/TrEMBL
InterPro Homeobox UniProtKB/TrEMBL
  Homeodomain-like UniProtKB/TrEMBL
  SIX1_SD UniProtKB/TrEMBL
KEGG Report rno:78974 UniProtKB/TrEMBL
NCBI Gene 78974 ENTREZGENE
PANTHER HOMEOBOX PROTEIN SIX UniProtKB/TrEMBL
  PTHR10390:SF31 UniProtKB/TrEMBL
Pfam Homeobox UniProtKB/TrEMBL
  SIX1_SD UniProtKB/TrEMBL
PhenoGen Six3 PhenoGen
PROSITE HOMEOBOX_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000057031 RatGTEx
SMART HOX UniProtKB/TrEMBL
Superfamily-SCOP Homeodomain_like UniProtKB/TrEMBL
UniProt A0A0G2JWI0_RAT UniProtKB/TrEMBL
  A0A0G2K2C0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6A1B9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6G4X0_RAT UniProtKB/TrEMBL
  Q9ET75 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-10-23 Six3  SIX homeobox 3  Six3  sine oculis-related homeobox 3 homolog (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-25 Six3  sine oculis-related homeobox 3 homolog (Drosophila)  Six3  sine oculis homeobox homolog 3 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Six3  sine oculis homeobox homolog 3 (Drosophila)    homeobox protein Six3  Name updated 1299863 APPROVED
2002-08-07 Six3  homeobox protein Six3      Symbol and Name status set to provisional 70820 PROVISIONAL