Sox2 (SRY-box transcription factor 2) - Rat Genome Database

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Gene: Sox2 (SRY-box transcription factor 2) Ictidomys tridecemlineatus
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Symbol: Sox2
Name: SRY-box transcription factor 2
RGD ID: 12559982
Description: ENCODES a protein that exhibits chromatin binding (ortholog); chromatin DNA binding (ortholog); DNA binding (ortholog); INVOLVED IN adenohypophysis development (ortholog); anatomical structure formation involved in morphogenesis (ortholog); cell fate commitment (ortholog); ASSOCIATED WITH aniridia (ortholog); Anophthalmia (ortholog); Ataxia (ortholog); FOUND IN cytoplasm (ortholog); cytosol (ortholog); nucleoplasm (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Also known as: SRY-box 2; transcription factor SOX-2
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602111,588,129 - 111,590,044 (+)NCBI
SpeTri2.0NW_0049365661,630,698 - 1,632,607 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
adenohypophysis development  (ISO)
anatomical structure formation involved in morphogenesis  (ISO)
cell fate commitment  (ISO)
cell fate specification  (ISO)
cellular response to cadmium ion  (ISO)
cerebral cortex development  (ISO)
detection of mechanical stimulus involved in equilibrioception  (ISO)
detection of mechanical stimulus involved in sensory perception of sound  (ISO)
diencephalon morphogenesis  (ISO)
embryonic organ development  (ISO)
endodermal cell fate specification  (ISO)
epithelial tube branching involved in lung morphogenesis  (ISO)
eye development  (ISO)
forebrain development  (ISO)
forebrain neuron differentiation  (ISO)
inner ear development  (ISO)
inner ear morphogenesis  (ISO)
lens induction in camera-type eye  (ISO)
lung alveolus development  (ISO)
male genitalia development  (ISO)
negative regulation of canonical Wnt signaling pathway  (ISO)
negative regulation of cell differentiation  (ISO)
negative regulation of epithelial cell proliferation  (ISO)
negative regulation of neuron differentiation  (ISO)
negative regulation of osteoblast differentiation  (ISO)
negative regulation of transcription by RNA polymerase II  (ISO)
negative regulation of Wnt signaling pathway  (ISO)
neuron fate commitment  (ISO)
neuronal stem cell population maintenance  (ISO)
olfactory placode formation  (ISO)
osteoblast differentiation  (ISO)
pigment biosynthetic process  (ISO)
pituitary gland development  (ISO)
positive regulation of cell differentiation  (ISO)
positive regulation of cell-cell adhesion  (ISO)
positive regulation of epithelial cell differentiation  (ISO)
positive regulation of MAPK cascade  (ISO)
positive regulation of neuroblast proliferation  (ISO)
positive regulation of neuron differentiation  (ISO)
positive regulation of Notch signaling pathway  (ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
positive regulation of transcription, DNA-templated  (ISO)
regulation of cell cycle  (ISO)
regulation of cysteine-type endopeptidase activity involved in apoptotic process  (ISO)
regulation of gene expression  (ISO)
regulation of neurogenesis  (ISO)
regulation of transcription by RNA polymerase II  (ISO)
regulation of transcription, DNA-templated  (ISO)
response to growth factor  (ISO)
response to organic substance  (ISO)
response to retinoic acid  (ISO)
response to wounding  (ISO)
retina morphogenesis in camera-type eye  (ISO)
sensory perception of sound  (ISO)
somatic stem cell population maintenance  (ISO)
stem cell differentiation  (ISO)
stem cell population maintenance  (ISO)
tissue regeneration  (ISO)
tongue development  (ISO)

Cellular Component

References

Genomics

Comparative Map Data
Sox2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602111,588,129 - 111,590,044 (+)NCBI
SpeTri2.0NW_0049365661,630,698 - 1,632,607 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SOX2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl3181,711,925 - 181,714,436 (+)EnsemblGRCh38hg38GRCh38
GRCh383181,711,925 - 181,714,436 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh373181,429,713 - 181,432,224 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 363182,912,416 - 182,914,918 (+)NCBINCBI36hg18NCBI36
Build 343182,912,423 - 182,914,923NCBI
Celera3179,863,407 - 179,865,909 (+)NCBI
Cytogenetic Map3q26.33NCBI
HuRef3178,834,536 - 178,837,048 (+)NCBIHuRef
CHM1_13181,392,587 - 181,395,099 (+)NCBICHM1_1
Sox2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39334,704,144 - 34,706,610 (+)NCBIGRCm39mm39
GRCm39 Ensembl334,704,554 - 34,706,610 (+)Ensembl
GRCm38334,649,995 - 34,652,461 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl334,650,405 - 34,652,461 (+)EnsemblGRCm38mm10GRCm38
MGSCv37334,548,927 - 34,551,383 (+)NCBIGRCm37mm9NCBIm37
MGSCv36334,841,604 - 34,844,008 (+)NCBImm8
Celera334,551,711 - 34,554,169 (+)NCBICelera
Cytogenetic Map3A3NCBI
cM Map316.93NCBI
Sox2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22117,536,929 - 117,539,338 (+)NCBI
Rnor_6.0 Ensembl2121,165,137 - 121,167,545 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02121,165,137 - 121,167,545 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02140,810,593 - 140,813,001 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42120,969,021 - 120,971,430 (+)NCBIRGSC3.4rn4RGSC3.4
Celera2112,569,723 - 112,572,132 (+)NCBICelera
Cytogenetic Map2q24NCBI
Sox2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542010,671,978 - 10,672,934 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542010,671,888 - 10,674,080 (+)NCBIChiLan1.0ChiLan1.0
SOX2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.13186,922,223 - 186,924,785 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3186,922,705 - 186,923,662 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v03178,744,881 - 178,747,392 (+)NCBIMhudiblu_PPA_v0panPan3
SOX2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13414,853,000 - 14,855,153 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3418,934,171 - 18,936,303 (+)NCBI
ROS_Cfam_1.03414,755,806 - 14,757,946 (+)NCBI
UMICH_Zoey_3.13414,797,347 - 14,799,478 (+)NCBI
UNSW_CanFamBas_1.03414,782,119 - 14,784,242 (+)NCBI
UU_Cfam_GSD_1.03415,026,650 - 15,028,779 (+)NCBI
SOX2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.113119,668,476 - 119,669,435 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213128,979,657 - 128,980,616 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Pig Cytomap13q23-q41NCBI
SOX2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1157,673,581 - 7,676,812 (-)NCBI
ChlSab1.1 Ensembl157,674,867 - 7,675,826 (-)Ensembl
Vero_WHO_p1.0NW_02366606316,496,978 - 16,500,141 (-)NCBI
Sox2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473059,570,879 - 59,573,001 (+)NCBI


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005330257 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAESOR010000662 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: XM_005330257   ⟹   XP_005330314
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405602111,588,129 - 111,590,044 (+)NCBI
SpeTri2.0NW_0049365661,630,698 - 1,632,607 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005330314 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein KAG3271059 (Get FASTA)   NCBI Sequence Viewer  
  KAG3271060 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_005330314   ⟸   XM_005330257
- Sequence:
Protein Domains
HMG box


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000011011 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSSTOP00000009872 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000011005 UniProtKB/TrEMBL
Gene3D-CATH 1.10.30.10 UniProtKB/TrEMBL
InterPro HMG_box_dom UniProtKB/TrEMBL
  HMG_box_dom_sf UniProtKB/TrEMBL
  SOX-2 UniProtKB/TrEMBL
  SOX_fam UniProtKB/TrEMBL
NCBI Gene Sox2 ENTREZGENE
PANTHER PTHR10270:SF231 UniProtKB/TrEMBL
Pfam HMG_box UniProtKB/TrEMBL
  SOXp UniProtKB/TrEMBL
PROSITE HMG_BOX_2 UniProtKB/TrEMBL
SMART HMG UniProtKB/TrEMBL
Superfamily-SCOP SSF47095 UniProtKB/TrEMBL
UniProt I3MGH9_ICTTR UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-06-18 Sox2  SRY-box transcription factor 2  Sox2  SRY-box 2  Symbol and/or name change 5135510 APPROVED