Sox5 (SRY-box transcription factor 5) - Rat Genome Database

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Gene: Sox5 (SRY-box transcription factor 5) Chinchilla lanigera
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Symbol: Sox5
Name: SRY-box transcription factor 5
RGD ID: 8825057
Description: ENCODES a protein that exhibits cis-regulatory region sequence-specific DNA binding (ortholog); DNA-binding transcription factor activity (ortholog); DNA-binding transcription factor activity, RNA polymerase II-specific (ortholog); INVOLVED IN asymmetric neuroblast division (ortholog); cartilage condensation (ortholog); cartilage development (ortholog); ASSOCIATED WITH atrial fibrillation (ortholog); autism spectrum disorder (ortholog); Cerebral Visual Impairment and Intellectual Disability (ortholog); FOUND IN nucleus (ortholog); transcription regulator complex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: SRY (sex determining region Y)-box 5; SRY-box 5; transcription factor SOX-5
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541318,831,931 - 19,204,217 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541318,831,931 - 19,676,371 (-)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
Sox5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541318,831,931 - 19,204,217 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541318,831,931 - 19,676,371 (-)NCBIChiLan1.0ChiLan1.0
SOX5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381223,529,504 - 24,562,650 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1223,529,504 - 24,562,544 (-)EnsemblGRCh38hg38GRCh38
GRCh371223,682,438 - 24,715,425 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361223,576,498 - 24,606,647 (-)NCBINCBI36Build 36hg18NCBI36
Celera1228,833,198 - 29,862,278 (-)NCBICelera
Cytogenetic Map12p12.1NCBI
HuRef1223,452,599 - 24,484,456 (-)NCBIHuRef
CHM1_11223,650,324 - 24,680,623 (-)NCBICHM1_1
T2T-CHM13v2.01223,401,301 - 24,433,529 (-)NCBIT2T-CHM13v2.0
Sox5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396143,774,151 - 144,728,008 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl6143,774,151 - 144,727,703 (-)EnsemblGRCm39 Ensembl
GRCm386143,828,425 - 144,782,287 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6143,828,425 - 144,781,977 (-)EnsemblGRCm38mm10GRCm38
MGSCv376143,781,349 - 144,158,078 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv366143,790,051 - 144,166,639 (-)NCBIMGSCv36mm8
Celera6146,885,590 - 147,265,302 (-)NCBICelera
Cytogenetic Map6G3NCBI
cM Map676.14NCBI
Sox5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84178,512,272 - 179,467,686 (-)NCBIGRCr8
mRatBN7.24176,781,375 - 177,736,833 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4176,785,892 - 177,736,852 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4183,088,517 - 183,461,996 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04178,872,831 - 179,246,322 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04177,493,406 - 177,866,892 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04178,062,267 - 179,031,991 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4178,066,165 - 178,441,547 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04242,266,295 - 243,221,217 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44181,558,995 - 181,931,117 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14181,825,983 - 182,011,429 (-)NCBI
Celera4165,313,274 - 165,629,808 (-)NCBICelera
Cytogenetic Map4q44NCBI
SOX5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21072,253,383 - 73,284,141 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11272,249,780 - 73,280,539 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01262,361,631 - 62,780,805 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11264,973,019 - 65,391,500 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1264,971,818 - 65,388,694 (+)Ensemblpanpan1.1panPan2
SOX5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12722,857,661 - 23,855,709 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2723,452,985 - 23,851,380 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2722,515,990 - 23,511,350 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02723,058,695 - 24,061,457 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2723,059,559 - 24,061,452 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12722,871,574 - 23,867,072 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02722,890,892 - 23,887,914 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02722,685,794 - 23,683,255 (-)NCBIUU_Cfam_GSD_1.0
Sox5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494584,725,370 - 85,677,233 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365483,213,466 - 3,599,425 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365483,213,305 - 3,599,876 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SOX5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl549,504,551 - 50,161,558 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1549,159,950 - 50,166,463 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2553,008,491 - 53,806,316 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SOX5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11123,298,622 - 24,131,712 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1123,303,325 - 23,715,492 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606910,803,456 - 11,833,677 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sox5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475214,985,942 - 15,378,465 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475214,986,146 - 15,382,687 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005379082 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_005379083 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_005379084 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_005379086 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_005379087 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_005379090 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_005379093 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_013511607 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_013511608 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_013511609 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AGCD01014193 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01014194 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01014195 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01014196 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01014197 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01014198 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01014199 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01014200 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01014201 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GBDJ01347233 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENSCLAT00000021579   ⟹   ENSCLAP00000021376
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495541318,831,931 - 19,204,217 (-)Ensembl
RefSeq Acc Id: ENSCLAT00000021580   ⟹   ENSCLAP00000021377
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495541318,832,273 - 19,204,207 (-)Ensembl
RefSeq Acc Id: ENSCLAT00000021581   ⟹   ENSCLAP00000021378
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495541319,107,046 - 19,204,205 (-)Ensembl
RefSeq Acc Id: XM_005379082   ⟹   XP_005379139
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495541318,831,931 - 19,204,217 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005379083   ⟹   XP_005379140
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495541318,831,931 - 19,204,217 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005379084   ⟹   XP_005379141
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495541318,831,931 - 19,205,491 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005379086   ⟹   XP_005379143
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495541318,831,931 - 19,676,371 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005379087   ⟹   XP_005379144
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495541318,831,931 - 19,204,217 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005379090   ⟹   XP_005379147
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495541318,831,931 - 19,019,559 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005379093   ⟹   XP_005379150
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495541318,831,931 - 19,019,559 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013511607   ⟹   XP_013367061
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495541318,831,931 - 19,205,040 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013511608   ⟹   XP_013367062
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495541318,831,931 - 19,204,217 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013511609   ⟹   XP_013367063
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495541318,831,931 - 19,204,217 (-)NCBI
Sequence:
RefSeq Acc Id: XP_005379140   ⟸   XM_005379083
- Peptide Label: isoform X2
- UniProtKB: A0A8C2VW49 (UniProtKB/TrEMBL),   A0A8C2YT48 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005379143   ⟸   XM_005379086
- Peptide Label: isoform X4
- UniProtKB: A0A8C2YT48 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005379141   ⟸   XM_005379084
- Peptide Label: isoform X3
- UniProtKB: A0A8C2YT48 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005379144   ⟸   XM_005379087
- Peptide Label: isoform X6
- UniProtKB: A0A8C2YT48 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005379139   ⟸   XM_005379082
- Peptide Label: isoform X1
- UniProtKB: A0A8C2YT48 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005379147   ⟸   XM_005379090
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_005379150   ⟸   XM_005379093
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_013367061   ⟸   XM_013511607
- Peptide Label: isoform X4
- UniProtKB: A0A8C2YT48 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013367063   ⟸   XM_013511609
- Peptide Label: isoform X7
- UniProtKB: A0A8C2YT48 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013367062   ⟸   XM_013511608
- Peptide Label: isoform X5
- UniProtKB: A0A8C2YT48 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCLAP00000021376   ⟸   ENSCLAT00000021579
RefSeq Acc Id: ENSCLAP00000021378   ⟸   ENSCLAT00000021581
RefSeq Acc Id: ENSCLAP00000021377   ⟸   ENSCLAT00000021580
Protein Domains
HMG box


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000014641 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000021579 ENTREZGENE
  ENSCLAT00000021579.1 UniProtKB/TrEMBL
  ENSCLAT00000021580.1 UniProtKB/TrEMBL
  ENSCLAT00000021581.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.30.10 UniProtKB/TrEMBL
InterPro HMG_box_dom UniProtKB/TrEMBL
  HMG_box_dom_sf UniProtKB/TrEMBL
NCBI Gene Sox5 ENTREZGENE
PANTHER FI18025P1 UniProtKB/TrEMBL
  TRANSCRIPTION FACTOR SOX-5 UniProtKB/TrEMBL
Pfam HMG_box UniProtKB/TrEMBL
PROSITE HMG_BOX_2 UniProtKB/TrEMBL
SMART HMG UniProtKB/TrEMBL
Superfamily-SCOP SSF47095 UniProtKB/TrEMBL
UniProt A0A8C2VW49 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C2YT48 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C2YT49_CHILA UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-06-18 Sox5  SRY-box transcription factor 5  Sox5  SRY-box 5  Symbol and/or name change 5135510 APPROVED
2016-08-16 Sox5  SRY-box 5    SRY (sex determining region Y)-box 5  Symbol and/or name change 5135510 APPROVED