SOX30 (SRY-box transcription factor 30) - Rat Genome Database

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Gene: SOX30 (SRY-box transcription factor 30) Sus scrofa
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Symbol: SOX30
Name: SRY-box transcription factor 30
RGD ID: 14276622
Description: ENCODES a protein that exhibits beta-catenin binding (inferred); DNA binding (inferred); DNA-binding transcription activator activity, RNA polymerase II-specific (inferred); INVOLVED IN negative regulation of transcription by RNA polymerase II (inferred); negative regulation of Wnt signaling pathway (inferred); positive regulation of transcription by RNA polymerase II (inferred); ASSOCIATED WITH hepatocellular carcinoma (ortholog); Liver Metastasis (ortholog); lung adenocarcinoma (ortholog); FOUND IN chromocenter (inferred); cytoplasm (inferred); cytosol (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: SRY-box 30; transcription factor SOX-30
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1665,642,223 - 65,678,047 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11665,642,107 - 65,677,693 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21671,494,089 - 71,532,303 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
SOX30
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1665,642,223 - 65,678,047 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11665,642,107 - 65,677,693 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21671,494,089 - 71,532,303 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SOX30
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385157,625,679 - 157,671,480 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5157,625,679 - 157,671,480 (-)EnsemblGRCh38hg38GRCh38
GRCh375157,052,687 - 157,098,488 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365156,985,265 - 157,012,006 (-)NCBINCBI36Build 36hg18NCBI36
Celera5153,079,301 - 153,106,027 (-)NCBICelera
Cytogenetic Map5q33.3NCBI
HuRef5152,141,308 - 152,168,043 (-)NCBIHuRef
CHM1_15156,485,413 - 156,512,148 (-)NCBICHM1_1
T2T-CHM13v2.05158,144,714 - 158,190,505 (-)NCBIT2T-CHM13v2.0
Sox30
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391145,869,873 - 45,908,824 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1145,871,137 - 45,908,821 (+)EnsemblGRCm39 Ensembl
GRCm381145,979,069 - 46,017,992 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1145,980,310 - 46,017,994 (+)EnsemblGRCm38mm10GRCm38
MGSCv371145,793,812 - 45,831,494 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361145,823,733 - 45,861,417 (+)NCBIMGSCv36mm8
Celera1150,569,188 - 50,580,989 (+)NCBICelera
Cytogenetic Map11B1.1NCBI
cM Map1127.49NCBI
Sox30
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81030,918,707 - 30,948,415 (+)NCBIGRCr8
mRatBN7.21030,417,499 - 30,446,441 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1030,418,473 - 30,446,453 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.01031,074,251 - 31,102,211 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1031,074,251 - 31,102,169 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01030,895,749 - 30,923,086 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41031,116,928 - 31,144,665 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1029,871,335 - 29,900,535 (+)NCBICelera
Cytogenetic Map10q21NCBI
Sox30
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540811,790,079 - 11,828,962 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540811,790,145 - 11,830,426 (-)NCBIChiLan1.0ChiLan1.0
SOX30
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24152,814,686 - 152,862,324 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15150,954,233 - 151,001,871 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05153,022,109 - 153,067,734 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15159,642,895 - 159,688,473 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5159,640,126 - 159,737,776 (-)Ensemblpanpan1.1panPan2
SOX30
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1452,587,163 - 52,615,945 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl452,587,355 - 52,615,945 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha452,478,213 - 52,507,510 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0453,021,730 - 53,051,044 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl453,022,045 - 53,051,044 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1452,849,219 - 52,878,517 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0452,955,552 - 52,984,862 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0453,473,267 - 53,502,568 (+)NCBIUU_Cfam_GSD_1.0
Sox30
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213107,051,963 - 107,087,980 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365155,458,393 - 5,537,946 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365155,501,315 - 5,537,946 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SOX30
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12360,013,384 - 60,038,682 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2360,014,046 - 60,037,997 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603417,546,899 - 17,616,449 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sox30
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473331,774,616 - 31,807,516 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473331,774,341 - 31,855,539 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in SOX30
910 total Variants

Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
1

Sequence


Ensembl Acc Id: ENSSSCT00000018564   ⟹   ENSSSCP00000018064
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1665,642,223 - 65,678,047 (+)Ensembl
RefSeq Acc Id: XM_003134105   ⟹   XP_003134153
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11665,642,107 - 65,677,693 (+)NCBI
Sequence:
RefSeq Acc Id: XM_003359837   ⟹   XP_003359885
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11665,642,110 - 65,676,783 (+)NCBI
Sequence:
RefSeq Acc Id: XP_003134153   ⟸   XM_003134105
- Peptide Label: isoform X1
- UniProtKB: F1RQF2 (UniProtKB/TrEMBL),   A0A4X1TYV8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_003359885   ⟸   XM_003359837
- Peptide Label: isoform X2
- UniProtKB: A0A4X1TW45 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSSSCP00000018064   ⟸   ENSSSCT00000018564
Protein Domains
HMG box


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000017051 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00025024840 UniProtKB/TrEMBL
  ENSSSCG00030015468 UniProtKB/TrEMBL
  ENSSSCG00035013844 UniProtKB/TrEMBL
  ENSSSCG00040044449 UniProtKB/TrEMBL
  ENSSSCG00045023225 UniProtKB/TrEMBL
  ENSSSCG00050034286 UniProtKB/TrEMBL
  ENSSSCG00060022976 UniProtKB/TrEMBL
  ENSSSCG00065052923 UniProtKB/TrEMBL
  ENSSSCG00070012814 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000018564 ENTREZGENE
  ENSSSCT00000018564.5 UniProtKB/TrEMBL
  ENSSSCT00025033632.1 UniProtKB/TrEMBL
  ENSSSCT00025033712.1 UniProtKB/TrEMBL
  ENSSSCT00030021385.1 UniProtKB/TrEMBL
  ENSSSCT00030021389.1 UniProtKB/TrEMBL
  ENSSSCT00035017505.1 UniProtKB/TrEMBL
  ENSSSCT00035017508.1 UniProtKB/TrEMBL
  ENSSSCT00040059711.1 UniProtKB/TrEMBL
  ENSSSCT00040059796.1 UniProtKB/TrEMBL
  ENSSSCT00045039801.1 UniProtKB/TrEMBL
  ENSSSCT00045039863.1 UniProtKB/TrEMBL
  ENSSSCT00050045986.1 UniProtKB/TrEMBL
  ENSSSCT00050045989.1 UniProtKB/TrEMBL
  ENSSSCT00060031200.1 UniProtKB/TrEMBL
  ENSSSCT00065072454.1 UniProtKB/TrEMBL
  ENSSSCT00065072460.1 UniProtKB/TrEMBL
  ENSSSCT00070025027.1 UniProtKB/TrEMBL
  ENSSSCT00070025029.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.30.10 UniProtKB/TrEMBL
InterPro HMG_box_dom UniProtKB/TrEMBL
  HMG_box_dom_sf UniProtKB/TrEMBL
  SOX30_TF UniProtKB/TrEMBL
KEGG Report ssc:100521345 UniProtKB/TrEMBL
NCBI Gene SOX30 ENTREZGENE
PANTHER TRANSCRIPTION FACTOR SOX-30 UniProtKB/TrEMBL
  TRANSCRIPTION FACTOR SOX-30 UniProtKB/TrEMBL
Pfam HMG_box UniProtKB/TrEMBL
PROSITE HMG_BOX_2 UniProtKB/TrEMBL
SMART HMG UniProtKB/TrEMBL
Superfamily-SCOP SSF47095 UniProtKB/TrEMBL
UniProt A0A4X1TW45 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1TYV8 ENTREZGENE, UniProtKB/TrEMBL
  F1RQF2 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:93356 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-06-18 SOX30  SRY-box transcription factor 30  SOX30  SRY-box 30  Symbol and/or name change 5135510 APPROVED