SOX21 (SRY-box transcription factor 21) - Rat Genome Database

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Gene: SOX21 (SRY-box transcription factor 21) Sus scrofa
Analyze
Symbol: SOX21
Name: SRY-box transcription factor 21
RGD ID: 14061195
Description: ENCODES a protein that exhibits DNA binding (inferred); DNA-binding transcription activator activity, RNA polymerase II-specific (inferred); DNA-binding transcription factor activity (inferred); INVOLVED IN hair cycle (ortholog); hair follicle development (ortholog); regulation of DNA-templated transcription (ortholog); ASSOCIATED WITH Anal Atresia, Hypospadias, and Penoscrotal Inversion (ortholog); genetic disease (ortholog); holoprosencephaly 5 (ortholog); FOUND IN nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: SRY-box 21; transcription factor SOX-21
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1163,825,637 - 63,826,467 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11163,822,110 - 63,826,498 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21169,963,743 - 69,968,603 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
SOX21
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1163,825,637 - 63,826,467 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11163,822,110 - 63,826,498 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21169,963,743 - 69,968,603 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SOX21
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381394,709,622 - 94,712,545 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1394,709,622 - 94,712,545 (-)EnsemblGRCh38hg38GRCh38
GRCh371395,361,876 - 95,364,799 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361394,159,877 - 94,162,390 (-)NCBINCBI36Build 36hg18NCBI36
Build 341394,159,881 - 94,162,390NCBI
Celera1376,209,825 - 76,212,338 (-)NCBICelera
Cytogenetic Map13q32.1NCBI
HuRef1375,959,157 - 75,961,671 (-)NCBIHuRef
CHM1_11395,331,276 - 95,333,789 (-)NCBICHM1_1
T2T-CHM13v2.01393,913,127 - 93,916,050 (-)NCBIT2T-CHM13v2.0
Sox21
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3914118,470,645 - 118,474,442 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl14118,470,644 - 118,474,442 (-)EnsemblGRCm39 Ensembl
GRCm3814118,233,233 - 118,237,030 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl14118,233,232 - 118,237,030 (-)EnsemblGRCm38mm10GRCm38
MGSCv3714118,632,455 - 118,636,252 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3614117,116,943 - 117,119,608 (-)NCBIMGSCv36mm8
Celera14116,788,885 - 116,795,226 (-)NCBICelera
Cytogenetic Map14E4NCBI
cM Map1461.92NCBI
Sox21
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr815101,699,580 - 101,703,175 (-)NCBIGRCr8
mRatBN7.21595,292,429 - 95,296,024 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1595,292,265 - 95,296,091 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1599,197,252 - 99,200,849 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.015100,329,208 - 100,332,805 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01597,257,882 - 97,261,479 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.015103,438,674 - 103,441,405 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl15103,440,212 - 103,441,030 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.015106,879,031 - 106,881,100 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.115103,137,749 - 103,215,460 (-)NCBI
Celera1594,143,028 - 94,146,136 (-)NCBICelera
Cytogenetic Map15q24NCBI
Sox21
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540415,181,880 - 15,182,753 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540415,181,866 - 15,184,317 (+)NCBIChiLan1.0ChiLan1.0
SOX21
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21496,238,793 - 96,241,220 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11394,907,515 - 94,909,952 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01375,872,786 - 75,886,125 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
SOX21
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha2245,293,201 - 45,295,757 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02245,937,673 - 45,940,223 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2245,939,312 - 45,940,142 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12245,590,821 - 45,593,354 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02245,632,292 - 45,634,845 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02245,641,650 - 45,644,164 (-)NCBIUU_Cfam_GSD_1.0
SOX21
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1373,536,573 - 73,539,077 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl373,538,172 - 73,538,999 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604629,926,237 - 29,929,157 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sox21
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248791,482,081 - 1,482,911 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248791,480,436 - 1,483,000 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in SOX21
86 total Variants

Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

hemolymphoid system nervous system reproductive system respiratory system
High
Medium
Low 1 12 1 1
Below cutoff 7

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000010410   ⟹   ENSSSCP00000010139
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1163,825,637 - 63,826,467 (-)Ensembl
RefSeq Acc Id: XM_021065785   ⟹   XP_020921444
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11163,822,110 - 63,826,498 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_020921444   ⟸   XM_021065785
- UniProtKB: A0A4X1UZK9 (UniProtKB/TrEMBL),   F2Z520 (UniProtKB/TrEMBL),   A0A8D1LYD3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000010139   ⟸   ENSSSCT00000010410
Protein Domains
HMG box


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000009494 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00025035991 UniProtKB/TrEMBL
  ENSSSCG00030060525 UniProtKB/TrEMBL
  ENSSSCG00035029830 UniProtKB/TrEMBL
  ENSSSCG00040024255 UniProtKB/TrEMBL
  ENSSSCG00050026379 UniProtKB/TrEMBL
  ENSSSCG00055022113 UniProtKB/TrEMBL
  ENSSSCG00060024098 UniProtKB/TrEMBL
  ENSSSCG00065010460 UniProtKB/TrEMBL
  ENSSSCG00070020586 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000010410 ENTREZGENE
  ENSSSCT00000010410.3 UniProtKB/TrEMBL
  ENSSSCT00025049029.1 UniProtKB/TrEMBL
  ENSSSCT00030084516.1 UniProtKB/TrEMBL
  ENSSSCT00035039512.1 UniProtKB/TrEMBL
  ENSSSCT00040032424.1 UniProtKB/TrEMBL
  ENSSSCT00050035492.1 UniProtKB/TrEMBL
  ENSSSCT00055043385.1 UniProtKB/TrEMBL
  ENSSSCT00060032685.1 UniProtKB/TrEMBL
  ENSSSCT00065013880.1 UniProtKB/TrEMBL
  ENSSSCT00070040920.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.30.10 UniProtKB/TrEMBL
InterPro HMG_box_dom UniProtKB/TrEMBL
  HMG_box_dom_sf UniProtKB/TrEMBL
  SOX_fam UniProtKB/TrEMBL
NCBI Gene SOX21 ENTREZGENE
PANTHER SOX TRANSCRIPTION FACTOR UniProtKB/TrEMBL
  TRANSCRIPTION FACTOR SOX-21 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 A0A4X1UZK9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1LYD3 ENTREZGENE, UniProtKB/TrEMBL
  F2Z520 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:93354 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-06-18 SOX21  SRY-box transcription factor 21  SOX21  SRY-box 21  Symbol and/or name change 5135510 APPROVED