Six4 (SIX homeobox 4) - Rat Genome Database

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Gene: Six4 (SIX homeobox 4) Rattus norvegicus
Analyze
Symbol: Six4
Name: SIX homeobox 4
RGD ID: 1306726
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 positive regulation of morphogenesis of an epithelium; regulation of DNA-templated transcription; and striated muscle cell differentiation. Predicted to act upstream of or within several processes, including embryonic organ morphogenesis; myoblast migration; and thymus development. Predicted to be located in cytoplasm. Predicted to be part of transcription regulator complex. Predicted to be active in nucleus. Orthologous to human SIX4 (SIX homeobox 4); INTERACTS WITH 1,2-dimethylhydrazine; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: homeobox protein SIX4; LOC299138; sine oculis-related homeobox 4 homolog; sine oculis-related homeobox 4 homolog (Drosophila)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8697,538,202 - 97,551,872 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl697,538,202 - 97,551,872 (-)EnsemblGRCr8
mRatBN7.2691,802,328 - 91,816,002 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl691,802,329 - 91,815,992 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx692,192,313 - 92,205,976 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0692,491,810 - 92,505,473 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0691,919,712 - 91,933,375 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0695,984,868 - 95,999,709 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl695,984,868 - 95,998,529 (-)Ensemblrn6Rnor6.0
Rnor_5.06105,420,180 - 105,433,894 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4695,526,293 - 95,539,953 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera690,265,300 - 90,278,960 (-)NCBICelera
RGSC_v3.1695,533,549 - 95,543,176 (-)NCBI
Cytogenetic Map6q24NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (EXP)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
6-propyl-2-thiouracil  (EXP)
acrolein  (EXP)
acrylamide  (ISO)
alpha-Zearalanol  (EXP)
amitrole  (EXP)
antirheumatic drug  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
Butylbenzyl phthalate  (ISO)
caffeine  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
chloroprene  (ISO)
choline  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
clofibrate  (ISO)
coumarin  (ISO)
dibutyl phthalate  (ISO)
diethyl maleate  (ISO)
diethyl phthalate  (ISO)
diisobutyl phthalate  (ISO)
diisononyl phthalate  (ISO)
diuron  (ISO)
doxorubicin  (ISO)
enzyme inhibitor  (ISO)
fenvalerate  (EXP)
folic acid  (ISO)
FR900359  (ISO)
genistein  (ISO)
glycidol  (EXP)
isoprenaline  (ISO)
L-methionine  (ISO)
leflunomide  (ISO)
lipopolysaccharide  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
methamphetamine  (EXP)
methimazole  (EXP)
methylisothiazolinone  (ISO)
perfluorooctanoic acid  (EXP)
phenobarbital  (ISO)
potassium chromate  (ISO)
resveratrol  (ISO)
rotenone  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
SCH 23390  (EXP)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sulfadimethoxine  (EXP)
titanium dioxide  (ISO)
tunicamycin  (ISO)
urethane  (ISO)
valproic acid  (EXP,ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
DNA-templated transcription  (IEA)
embryonic cranial skeleton morphogenesis  (ISO)
embryonic skeletal system morphogenesis  (ISO)
fungiform papilla morphogenesis  (ISO)
generation of neurons  (ISO)
inner ear morphogenesis  (ISO)
male gonad development  (ISO)
male sex determination  (ISO)
male sex differentiation  (ISO)
metanephric mesenchyme development  (ISO)
myoblast migration  (ISO)
myotome development  (ISO)
negative regulation of apoptotic process  (ISO)
negative regulation of DNA-templated transcription  (ISO)
negative regulation of neuron apoptotic process  (ISO)
negative regulation of satellite cell differentiation  (ISO)
olfactory placode formation  (ISO)
pharyngeal system development  (ISO)
positive regulation of branching involved in ureteric bud morphogenesis  (ISO)
positive regulation of DNA-templated transcription  (ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
positive regulation of ureteric bud formation  (ISO)
protein localization to nucleus  (ISO)
regulation of branch elongation involved in ureteric bud branching  (ISO)
regulation of DNA-templated transcription  (IEA)
regulation of epithelial cell proliferation  (ISO)
regulation of gene expression  (ISO)
regulation of protein localization  (ISO)
regulation of synaptic assembly at neuromuscular junction  (ISO)
regulation of transcription by RNA polymerase II  (IBA,IEA)
sarcomere organization  (ISO)
skeletal muscle fiber differentiation  (ISO)
skeletal muscle tissue development  (ISO)
thymus development  (ISO)
tongue development  (ISO)
trigeminal ganglion development  (ISO)

Cellular Component
cytoplasm  (IEA,ISO)
nucleus  (IBA,IEA,ISO)
transcription regulator complex  (IBA)

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8814301   PMID:9826681   PMID:9990334   PMID:10490620   PMID:14966291   PMID:15788460   PMID:15955062   PMID:16530750   PMID:16938278   PMID:17300925   PMID:17592144   PMID:19027001  
PMID:19962975   PMID:20515681   PMID:20696153   PMID:21884692   PMID:21978088   PMID:23987514  


Genomics

Comparative Map Data
Six4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8697,538,202 - 97,551,872 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl697,538,202 - 97,551,872 (-)EnsemblGRCr8
mRatBN7.2691,802,328 - 91,816,002 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl691,802,329 - 91,815,992 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx692,192,313 - 92,205,976 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0692,491,810 - 92,505,473 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0691,919,712 - 91,933,375 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0695,984,868 - 95,999,709 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl695,984,868 - 95,998,529 (-)Ensemblrn6Rnor6.0
Rnor_5.06105,420,180 - 105,433,894 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4695,526,293 - 95,539,953 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera690,265,300 - 90,278,960 (-)NCBICelera
RGSC_v3.1695,533,549 - 95,543,176 (-)NCBI
Cytogenetic Map6q24NCBI
SIX4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381460,709,539 - 60,724,351 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1460,709,539 - 60,724,351 (-)Ensemblhg38GRCh38
GRCh371461,176,257 - 61,191,069 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361460,246,009 - 60,260,545 (-)NCBIBuild 36Build 36hg18NCBI36
Build 341460,249,877 - 60,260,482NCBI
Celera1441,226,507 - 41,241,110 (-)NCBICelera
Cytogenetic Map14q23.1NCBI
HuRef1441,338,950 - 41,376,872 (-)NCBIHuRef
CHM1_11461,115,577 - 61,130,176 (-)NCBICHM1_1
T2T-CHM13v2.01454,916,015 - 54,930,882 (-)NCBIT2T-CHM13v2.0
Six4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391273,146,383 - 73,160,201 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1273,146,383 - 73,160,230 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381273,099,609 - 73,114,031 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1273,099,609 - 73,113,456 (-)Ensemblmm10GRCm38
MGSCv371274,201,246 - 74,214,232 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361274,019,097 - 74,032,083 (-)NCBIMGSCv36mm8
Celera1274,211,796 - 74,224,743 (-)NCBICelera
Cytogenetic Map12C3NCBI
cM Map1230.36NCBI
Six4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554668,902,517 - 8,915,723 (+)Ensembl
ChiLan1.0NW_0049554668,902,728 - 8,915,685 (+)NCBIChiLan1.0ChiLan1.0
LOC100981746
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21561,847,361 - 61,862,181 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11461,063,874 - 61,078,684 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01441,316,169 - 41,332,160 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11459,580,587 - 59,592,654 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1459,580,587 - 59,594,014 (-)EnsemblpanPan2panpan1.1
SIX4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1835,735,893 - 35,748,976 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl835,737,058 - 35,748,893 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha835,489,928 - 35,502,823 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0835,969,183 - 35,982,082 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl835,970,354 - 35,982,196 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1835,581,305 - 35,594,193 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0835,658,978 - 35,671,679 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0836,020,222 - 36,033,117 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Six4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864069,291,248 - 69,302,270 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364954,887,718 - 4,900,198 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049364954,887,718 - 4,900,198 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SIX4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1189,670,390 - 189,682,577 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11189,670,390 - 189,682,378 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21210,780,397 - 210,792,387 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SIX4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12437,899,463 - 37,911,875 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2437,900,909 - 37,911,612 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605326,152,002 - 26,164,077 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Six4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473440,397,559 - 40,409,997 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462473440,397,276 - 40,409,951 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Six4
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1787,368,527 - 87,378,098 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Six4
21 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:550
Count of miRNA genes:269
Interacting mature miRNAs:367
Transcripts:ENSRNOT00000050138
Prediction methods:Miranda, 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.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4145119Mcs25Mammary carcinoma susceptibility QTL 250.0001mammary gland integrity trait (VT:0010552)ratio of deaths to total study population during a period of time (CMO:0001023)671278722116278722Rat
70176Mcsm1Mammary carcinoma susceptibility modifier QTL 1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)664367996109367996Rat
2293088Iddm28Insulin dependent diabetes mellitus QTL 285.21blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)668767270135411972Rat
1331799Bp211Blood pressure QTL 2113.66407arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)688019181136741135Rat
1581563Uae33Urinary albumin excretion QTL 33urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)693560258136550638Rat
10054138Gmadr3Adrenal mass QTL 33.680.00045adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)690871046135871046Rat
724524Uae2Urinary albumin excretion QTL 22.70.0005urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)679198463144254945Rat
4889933Bss88Bone structure and strength QTL 883.8tibia size trait (VT:0100001)tibia total bone volume (CMO:0001724)65368492198684921Rat
737827Hcar11Hepatocarcinoma resistance QTL 114.4liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)646050607116278722Rat
2303624Vencon5Ventilatory control QTL 54.45respiration trait (VT:0001943)minute ventilation (CMO:0000132)693778632138778632Rat
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)620859430113082285Rat
2293837Kiddil1Kidney dilation QTL 13.7kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)686867923110125012Rat
2293842Kiddil3Kidney dilation QTL 34.3kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)686867923110125012Rat
61329Eae9Experimental allergic encephalomyelitis QTL 93.7body mass (VT:0001259)change in body weight (CMO:0002045)684490437129490437Rat
10054123Srcrt6Stress Responsive Cort QTL 62.50.0043blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)690871046135871046Rat
724536Uae7Urinary albumin excretion QTL 73.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)693560258136550638Rat
5684963Bss99Bone structure and strength QTL 993.1tibia area (VT:1000281)tibia area measurement (CMO:0001382)65368492198684921Rat
1576302Schws4Schwannoma susceptibility QTL 40.0078nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)678204640123204640Rat
1581550Pur8Proteinuria QTL 8urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)693560258136550638Rat
5684992Bmd83Bone mineral density QTL 824.8tibia mineral mass (VT:1000283)bone mineral content (CMO:0001554)65368492198684921Rat
1300075Glom7Glomerulus QTL 75.60.0000002kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)676937178121937178Rat
1331789Rf37Renal function QTL 373.224kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)686494122112380234Rat

Markers in Region
RH129748  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2691,802,403 - 91,802,570 (+)MAPPERmRatBN7.2
Rnor_6.0695,984,943 - 95,985,109NCBIRnor6.0
Rnor_5.06105,420,255 - 105,420,421UniSTSRnor5.0
RGSC_v3.4695,526,368 - 95,526,534UniSTSRGSC3.4
Celera690,265,375 - 90,265,541UniSTS
RH 3.4 Map6660.2UniSTS
Cytogenetic Map6q24UniSTS
D50417  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2691,811,705 - 91,811,865 (+)MAPPERmRatBN7.2
Rnor_6.0695,994,242 - 95,994,401NCBIRnor6.0
Rnor_5.06105,429,554 - 105,429,713UniSTSRnor5.0
RGSC_v3.4695,535,667 - 95,535,826UniSTSRGSC3.4
Celera690,274,674 - 90,274,833UniSTS
Cytogenetic Map6q24UniSTS


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
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 136 71 70 39 73 39 6 317 173 11 113 81 89 31 9 9

Sequence


Ensembl Acc Id: ENSRNOT00000050138   ⟹   ENSRNOP00000050667
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl697,538,202 - 97,551,872 (-)Ensembl
mRatBN7.2 Ensembl691,802,329 - 91,815,992 (-)Ensembl
Rnor_6.0 Ensembl695,984,868 - 95,998,529 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000117601   ⟹   ENSRNOP00000089936
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl697,538,202 - 97,551,872 (-)Ensembl
mRatBN7.2 Ensembl691,802,329 - 91,815,992 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000146544   ⟹   ENSRNOP00000099548
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl697,538,202 - 97,551,872 (-)Ensembl
RefSeq Acc Id: NM_001106739   ⟹   NP_001100209
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8697,538,202 - 97,551,872 (-)NCBI
mRatBN7.2691,802,329 - 91,816,002 (-)NCBI
Rnor_6.0695,984,868 - 95,998,529 (-)NCBI
Rnor_5.06105,420,180 - 105,433,894 (-)NCBI
RGSC_v3.4695,526,293 - 95,539,953 (-)RGD
Celera690,265,300 - 90,278,960 (-)RGD
Sequence:
RefSeq Acc Id: NM_001414919   ⟹   NP_001401848
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8697,538,202 - 97,551,872 (-)NCBI
mRatBN7.2691,802,329 - 91,816,002 (-)NCBI
RefSeq Acc Id: NM_001414920   ⟹   NP_001401849
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8697,538,202 - 97,551,872 (-)NCBI
mRatBN7.2691,802,329 - 91,816,002 (-)NCBI
RefSeq Acc Id: NP_001100209   ⟸   NM_001106739
- Peptide Label: isoform 3
- UniProtKB: D3ZAJ7 (UniProtKB/TrEMBL),   A6HC53 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000050667   ⟸   ENSRNOT00000050138
Ensembl Acc Id: ENSRNOP00000089936   ⟸   ENSRNOT00000117601
RefSeq Acc Id: NP_001401849   ⟸   NM_001414920
- Peptide Label: isoform 2
- UniProtKB: A0A8I6AM05 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001401848   ⟸   NM_001414919
- Peptide Label: isoform 1
Ensembl Acc Id: ENSRNOP00000099548   ⟸   ENSRNOT00000146544
Protein Domains
Homeobox

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZAJ7-F1-model_v2 AlphaFold D3ZAJ7 1-705 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:1306726 AgrOrtholog
BioCyc Gene G2FUF-37118 BioCyc
Ensembl Genes ENSRNOG00000007250 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000050138 ENTREZGENE
  ENSRNOT00000050138.4 UniProtKB/TrEMBL
  ENSRNOT00000117601 ENTREZGENE
  ENSRNOT00000117601.2 UniProtKB/TrEMBL
  ENSRNOT00000146544 ENTREZGENE
  ENSRNOT00000146544.1 UniProtKB/TrEMBL
Gene3D-CATH Homeodomain-like UniProtKB/TrEMBL
InterPro Homeobox UniProtKB/TrEMBL
  Homeobox_CS UniProtKB/TrEMBL
  Homeodomain-like UniProtKB/TrEMBL
  SIX1_SD UniProtKB/TrEMBL
KEGG Report rno:299138 UniProtKB/TrEMBL
NCBI Gene 299138 ENTREZGENE
PANTHER HOMEOBOX PROTEIN SIX UniProtKB/TrEMBL
  HOMEOBOX PROTEIN SIX4 UniProtKB/TrEMBL
Pfam Homeobox UniProtKB/TrEMBL
  SIX1_SD UniProtKB/TrEMBL
PhenoGen Six4 PhenoGen
PROSITE HOMEOBOX_1 UniProtKB/TrEMBL
  HOMEOBOX_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000007250 RatGTEx
SMART HOX UniProtKB/TrEMBL
Superfamily-SCOP Homeodomain_like UniProtKB/TrEMBL
UniProt A0A8I6AM05 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0L5T9_RAT UniProtKB/TrEMBL
  A6HC53 ENTREZGENE, UniProtKB/TrEMBL
  D3ZAJ7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-10-23 Six4  SIX homeobox 4  Six4  sine oculis-related homeobox 4 homolog (Drosophila)   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Six4  sine oculis-related homeobox 4 homolog (Drosophila)   Six4_predicted  sine oculis-related homeobox 4 homolog (Drosophila) (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Six4_predicted  sine oculis-related homeobox 4 homolog (Drosophila) (predicted)      Symbol and Name status set to approved 70820 APPROVED