Sobp (sine oculis binding protein homolog) - Rat Genome Database

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Gene: Sobp (sine oculis binding protein homolog) Heterocephalus glaber
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Symbol: Sobp
Name: sine oculis binding protein homolog
RGD ID: 18913945
Description: ENCODES a protein that exhibits SUMO polymer binding (ortholog); INVOLVED IN cochlea development (ortholog); cognition (ortholog); inner ear morphogenesis (ortholog); ASSOCIATED WITH basal cell carcinoma (ortholog); Charcot-Marie-Tooth disease type 4 (ortholog); Impaired intellectual development, anterior maxillary protrusion, and strabismus (ortholog); FOUND IN nucleus (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: sine oculis-binding protein homolog
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_00462478014,616,469 - 14,773,237 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462478014,618,283 - 14,773,190 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nucleus  (ISO)

Molecular Function

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
Sobp
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462478014,616,469 - 14,773,237 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462478014,618,283 - 14,773,190 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
SOBP
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386107,490,117 - 107,661,306 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6107,490,106 - 107,661,306 (+)EnsemblGRCh38hg38GRCh38
GRCh376107,811,321 - 107,982,510 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 366107,918,010 - 108,089,206 (+)NCBINCBI36Build 36hg18NCBI36
Celera6108,559,766 - 108,731,020 (+)NCBICelera
Cytogenetic Map6q21NCBI
HuRef6105,382,294 - 105,553,438 (+)NCBIHuRef
CHM1_16108,074,040 - 108,245,206 (+)NCBICHM1_1
T2T-CHM13v2.06108,669,050 - 108,840,201 (+)NCBIT2T-CHM13v2.0
Sobp
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391042,878,484 - 43,059,144 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1042,878,496 - 43,050,526 (-)EnsemblGRCm39 Ensembl
GRCm381043,002,488 - 43,183,139 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1043,002,500 - 43,174,530 (-)EnsemblGRCm38mm10GRCm38
MGSCv371042,722,306 - 42,894,336 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361042,709,403 - 42,862,624 (-)NCBIMGSCv36mm8
Celera1043,869,724 - 44,040,986 (-)NCBICelera
Cytogenetic Map10B2NCBI
cM Map1022.89NCBI
Sobp
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82048,064,445 - 48,243,607 (-)NCBIGRCr8
mRatBN7.22046,482,265 - 46,661,452 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2046,482,765 - 46,663,541 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2048,218,691 - 48,378,244 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02047,868,868 - 48,028,261 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02048,554,915 - 48,713,122 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02047,731,713 - 47,910,466 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2047,750,762 - 47,910,375 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02049,392,717 - 49,571,453 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42046,918,487 - 47,079,823 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera2053,318,595 - 53,477,647 (+)NCBICelera
Cytogenetic Map20q13NCBI
Sobp
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541132,745,235 - 32,881,138 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541132,745,029 - 32,898,570 (+)NCBIChiLan1.0ChiLan1.0
SOBP
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25127,508,131 - 127,653,487 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16125,398,165 - 125,543,409 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v06105,302,531 - 105,472,674 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.16109,168,069 - 109,337,549 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6109,168,069 - 109,337,549 (+)Ensemblpanpan1.1panPan2
SOBP
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11264,653,814 - 64,794,144 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1264,664,288 - 64,794,358 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1264,437,857 - 64,600,059 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01265,495,687 - 65,658,309 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1265,495,190 - 65,657,997 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11264,853,883 - 65,014,980 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01264,699,469 - 64,861,386 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01264,972,924 - 65,135,154 (+)NCBIUU_Cfam_GSD_1.0
Sobp
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494699,580,809 - 99,727,629 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365643,855,672 - 3,982,401 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365643,855,526 - 4,000,809 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SOBP
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl173,549,307 - 73,702,020 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1173,549,778 - 73,722,689 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2182,785,729 - 82,958,188 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SOBP
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11366,202,747 - 66,374,992 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1366,227,944 - 66,374,736 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604038,527,901 - 38,699,086 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSHGLT00000009478   ⟹   ENSHGLP00000009374
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462478014,616,469 - 14,773,237 (-)Ensembl
Ensembl Acc Id: ENSHGLT00000009479   ⟹   ENSHGLP00000009375
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462478014,616,469 - 14,773,237 (-)Ensembl
Ensembl Acc Id: ENSHGLT00000009480   ⟹   ENSHGLP00000009376
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462478014,772,098 - 14,772,643 (-)Ensembl
RefSeq Acc Id: XM_004855430   ⟹   XP_004855487
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462478014,618,283 - 14,773,190 (-)NCBI
RefSeq Acc Id: XM_021236876   ⟹   XP_021092535
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462478014,618,283 - 14,772,729 (-)NCBI
RefSeq Acc Id: XM_021236877   ⟹   XP_021092536
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462478014,618,283 - 14,772,729 (-)NCBI
RefSeq Acc Id: XM_021236878   ⟹   XP_021092537
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462478014,618,283 - 14,770,137 (-)NCBI
Protein Sequences
Protein RefSeqs XP_004855487 (Get FASTA)   NCBI Sequence Viewer  
  XP_021092535 (Get FASTA)   NCBI Sequence Viewer  
  XP_021092536 (Get FASTA)   NCBI Sequence Viewer  
  XP_021092537 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000009374
  ENSHGLP00000009375
RefSeq Acc Id: XP_004855487   ⟸   XM_004855430
- Peptide Label: isoform X1
- UniProtKB: A0AAX6R5K1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021092536   ⟸   XM_021236877
- Peptide Label: isoform X2
- UniProtKB: A0AAX6R6L5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021092535   ⟸   XM_021236876
- Peptide Label: isoform X1
- UniProtKB: A0AAX6R5K1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021092537   ⟸   XM_021236878
- Peptide Label: isoform X3
- UniProtKB: A0AAX6R7J4 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSHGLP00000009375   ⟸   ENSHGLT00000009479
Ensembl Acc Id: ENSHGLP00000009374   ⟸   ENSHGLT00000009478
Ensembl Acc Id: ENSHGLP00000009376   ⟸   ENSHGLT00000009480


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000006724 Ensembl, ENTREZGENE
Ensembl Transcript ENSHGLT00000009478 ENTREZGENE
  ENSHGLT00000009479 ENTREZGENE
NCBI Gene Sobp ENTREZGENE
UniProt A0AAX6R5K1 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6R6L5 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6R7J4 ENTREZGENE, UniProtKB/TrEMBL