Sox13 (SRY-box transcription factor 13) - 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: Sox13 (SRY-box transcription factor 13) Heterocephalus glaber
Analyze
Symbol: Sox13
Name: SRY-box transcription factor 13
RGD ID: 18928327
Description: ENCODES a protein that exhibits DNA-binding transcription repressor activity (ortholog); DNA-binding transcription repressor activity, RNA polymerase II-specific (ortholog); identical protein binding (ortholog); INVOLVED IN gamma-delta T cell differentiation (ortholog); negative regulation of canonical Wnt signaling pathway (ortholog); negative regulation of DNA-templated transcription (ortholog); ASSOCIATED WITH autistic disorder (ortholog); COVID-19 (ortholog); familial adult myoclonic epilepsy 5 (ortholog); FOUND IN cytoplasm (ortholog); nucleoplasm (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: SRY-box 13; Transcription factor SOX-13
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248076,848,218 - 6,888,467 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248076,848,218 - 6,887,666 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (ISO)
nucleoplasm  (ISO)
nucleus  (IEA)

References
Additional References at PubMed
PMID:21993625   PMID:30032202  


Genomics

Comparative Map Data
Sox13
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248076,848,218 - 6,888,467 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248076,848,218 - 6,887,666 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
SOX13
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381204,073,115 - 204,127,743 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1204,073,115 - 204,127,743 (+)EnsemblGRCh38hg38GRCh38
GRCh371204,042,243 - 204,096,871 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361202,308,869 - 202,363,494 (+)NCBINCBI36Build 36hg18NCBI36
Build 341200,773,902 - 200,828,526NCBI
Celera1177,177,489 - 177,232,113 (+)NCBICelera
Cytogenetic Map1q32.1NCBI
HuRef1175,207,788 - 175,262,190 (+)NCBIHuRef
CHM1_11205,465,911 - 205,520,530 (+)NCBICHM1_1
T2T-CHM13v2.01203,337,265 - 203,391,900 (+)NCBIT2T-CHM13v2.0
Sox13
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391133,310,038 - 133,352,159 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1133,310,041 - 133,352,115 (-)EnsemblGRCm39 Ensembl
GRCm381133,382,300 - 133,424,459 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1133,382,303 - 133,424,377 (-)EnsemblGRCm38mm10GRCm38
MGSCv371135,278,877 - 135,320,789 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361135,209,849 - 135,220,764 (-)NCBIMGSCv36mm8
Celera1135,994,724 - 136,036,968 (-)NCBICelera
Cytogenetic Map1E4NCBI
cM Map157.91NCBI
Sox13
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81347,383,145 - 47,427,572 (-)NCBIGRCr8
mRatBN7.21344,831,097 - 44,875,522 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1344,831,085 - 44,875,762 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1347,440,198 - 47,484,766 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01348,728,297 - 48,772,864 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01345,987,023 - 46,031,359 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01350,434,702 - 50,479,118 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1350,434,702 - 50,479,657 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01355,487,460 - 55,531,979 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41346,298,820 - 46,345,155 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11346,314,242 - 46,328,986 (-)NCBI
Celera1345,163,489 - 45,207,838 (-)NCBICelera
Cytogenetic Map13q13NCBI
Sox13
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540639,966,055 - 39,994,214 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540639,959,458 - 39,994,214 (+)NCBIChiLan1.0ChiLan1.0
SOX13
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2145,248,731 - 45,303,911 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1145,214,012 - 45,269,597 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01179,675,017 - 179,730,628 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11183,963,390 - 184,018,111 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1184,003,907 - 184,016,504 (+)Ensemblpanpan1.1panPan2
SOX13
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.138702,974 - 721,340 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl38523,481 - 720,195 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha38798,529 - 815,690 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.038705,300 - 716,303 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl38519,330 - 717,371 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.138701,321 - 712,098 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0381,092,743 - 1,103,513 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0381,286,221 - 1,304,778 (+)NCBIUU_Cfam_GSD_1.0
Sox13
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934471,396,509 - 71,441,482 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936567630,855 - 642,017 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936567631,126 - 641,967 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SOX13
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl964,731,969 - 64,780,942 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1964,745,762 - 64,780,942 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2971,086,586 - 71,142,049 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SOX13
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12525,220,341 - 25,275,981 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2525,221,945 - 25,235,449 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605525,980,881 - 26,036,324 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSHGLT00000005556   ⟹   ENSHGLP00000005485
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_0046248076,848,218 - 6,888,467 (-)Ensembl
RefSeq Acc Id: XM_004862165   ⟹   XP_004862222
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046248076,848,218 - 6,874,940 (-)NCBI
RefSeq Acc Id: XM_004862166   ⟹   XP_004862223
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046248076,848,218 - 6,887,666 (-)NCBI
RefSeq Acc Id: XM_004862168   ⟹   XP_004862225
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046248076,848,218 - 6,858,322 (-)NCBI
RefSeq Acc Id: XM_021242390   ⟹   XP_021098049
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046248076,848,218 - 6,857,395 (-)NCBI
RefSeq Acc Id: XM_021242391   ⟹   XP_021098050
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046248076,848,218 - 6,879,024 (-)NCBI
RefSeq Acc Id: XM_021242392   ⟹   XP_021098051
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046248076,848,218 - 6,879,142 (-)NCBI
RefSeq Acc Id: XM_021242393   ⟹   XP_021098052
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046248076,848,218 - 6,862,575 (-)NCBI
RefSeq Acc Id: XM_021242394   ⟹   XP_021098053
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046248076,849,578 - 6,857,395 (-)NCBI
RefSeq Acc Id: XP_004862223   ⟸   XM_004862166
- Peptide Label: isoform X2
- UniProtKB: A0AAX6PZV1 (UniProtKB/TrEMBL),   G5BML7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021098051   ⟸   XM_021242392
- Peptide Label: isoform X2
- UniProtKB: A0AAX6PZV1 (UniProtKB/TrEMBL),   G5BML7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021098050   ⟸   XM_021242391
- Peptide Label: isoform X2
- UniProtKB: A0AAX6PZV1 (UniProtKB/TrEMBL),   G5BML7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_004862222   ⟸   XM_004862165
- Peptide Label: isoform X2
- UniProtKB: A0AAX6PZV1 (UniProtKB/TrEMBL),   G5BML7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021098052   ⟸   XM_021242393
- Peptide Label: isoform X2
- UniProtKB: A0AAX6PZV1 (UniProtKB/TrEMBL),   G5BML7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_004862225   ⟸   XM_004862168
- Peptide Label: isoform X2
- UniProtKB: A0AAX6PZV1 (UniProtKB/TrEMBL),   G5BML7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021098049   ⟸   XM_021242390
- Peptide Label: isoform X1
- UniProtKB: A0AAX6RNP7 (UniProtKB/TrEMBL),   G5BML7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021098053   ⟸   XM_021242394
- Peptide Label: isoform X3
- UniProtKB: A0AAX6RQJ9 (UniProtKB/TrEMBL),   G5BML7 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSHGLP00000005485   ⟸   ENSHGLT00000005556


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000004023 Ensembl, ENTREZGENE
Ensembl Transcript ENSHGLT00000005556 ENTREZGENE
Gene3D-CATH High mobility group box domain UniProtKB/TrEMBL
InterPro HMG_box_dom UniProtKB/TrEMBL
  HMG_box_dom_sf UniProtKB/TrEMBL
  SOX/SOX-like_TF UniProtKB/TrEMBL
NCBI Gene Sox13 ENTREZGENE
PANTHER FI18025P1 UniProtKB/TrEMBL
  TRANSCRIPTION FACTOR SOX-13 UniProtKB/TrEMBL
Pfam HMG_box UniProtKB/TrEMBL
PROSITE HMG_BOX_2 UniProtKB/TrEMBL
SMART HMG UniProtKB/TrEMBL
Superfamily-SCOP HMG-box UniProtKB/TrEMBL
UniProt A0AAX6PZV1 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6RNP7 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6RQJ9 ENTREZGENE, UniProtKB/TrEMBL
  G5BML7 ENTREZGENE, UniProtKB/TrEMBL