SLC10A1 (solute carrier family 10 member 1) - Rat Genome Database

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Gene: SLC10A1 (solute carrier family 10 member 1) Canis lupus familiaris
Analyze
Symbol: SLC10A1
Name: solute carrier family 10 member 1
RGD ID: 12083935
Description: ENCODES a protein that exhibits bile acid transmembrane transporter activity (ortholog); bile acid:sodium symporter activity (ortholog); INVOLVED IN bile acid and bile salt transport (ortholog); bile acid signaling pathway (ortholog); cellular response to xenobiotic stimulus (ortholog); PARTICIPATES IN bile acid signaling pathway; ASSOCIATED WITH alcoholic hepatitis (ortholog); Chemical and Drug Induced Liver Injury (ortholog); cholestasis (ortholog); FOUND IN basolateral plasma membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: sodium/bile acid cotransporter; solute carrier family 10 (sodium/bile acid cotransporter family), member 1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1843,521,291 - 43,546,426 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl843,521,747 - 43,546,274 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha843,210,224 - 43,234,841 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0843,749,263 - 43,773,881 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl843,749,716 - 43,773,832 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1843,363,627 - 43,388,457 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0843,437,348 - 43,461,959 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0843,797,816 - 43,821,924 (-)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
SLC10A1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1843,521,291 - 43,546,426 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl843,521,747 - 43,546,274 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha843,210,224 - 43,234,841 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0843,749,263 - 43,773,881 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl843,749,716 - 43,773,832 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1843,363,627 - 43,388,457 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0843,437,348 - 43,461,959 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0843,797,816 - 43,821,924 (-)NCBIUU_Cfam_GSD_1.0
SLC10A1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381469,775,416 - 69,797,241 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1469,775,416 - 69,797,241 (-)EnsemblGRCh38hg38GRCh38
GRCh371470,242,133 - 70,263,958 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361469,312,305 - 69,333,707 (-)NCBINCBI36Build 36hg18NCBI36
Build 341469,312,304 - 69,333,707NCBI
Celera1450,306,664 - 50,328,118 (-)NCBICelera
Cytogenetic Map14q24.1NCBI
HuRef1450,411,110 - 50,432,563 (-)NCBIHuRef
CHM1_11470,180,694 - 70,202,147 (-)NCBICHM1_1
T2T-CHM13v2.01463,983,088 - 64,004,909 (-)NCBIT2T-CHM13v2.0
Slc10a1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391280,999,959 - 81,015,479 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1280,999,957 - 81,015,479 (-)EnsemblGRCm39 Ensembl
GRCm381280,953,185 - 80,968,705 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1280,953,183 - 80,968,705 (-)EnsemblGRCm38mm10GRCm38
MGSCv371282,054,172 - 82,069,066 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361281,874,340 - 81,886,832 (-)NCBIMGSCv36mm8
Celera1282,418,707 - 82,433,538 (-)NCBICelera
Cytogenetic Map12D1NCBI
cM Map1237.21NCBI
Slc10a1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr86106,344,319 - 106,357,944 (-)NCBIGRCr8
mRatBN7.26100,613,045 - 100,626,670 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl6100,613,045 - 100,626,670 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx6100,773,704 - 100,787,344 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.06101,072,886 - 101,086,526 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.06100,453,053 - 100,466,659 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.06104,617,730 - 104,631,355 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl6104,617,730 - 104,631,355 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.06112,782,934 - 112,796,559 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.46104,735,839 - 104,749,464 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.16104,739,294 - 104,752,920 (-)NCBI
Celera698,468,708 - 98,482,340 (-)NCBICelera
Cytogenetic Map6q24NCBI
Slc10a1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955466597,204 - 608,756 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955466597,081 - 609,254 (+)NCBIChiLan1.0ChiLan1.0
SLC10A1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21570,900,139 - 70,921,237 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11470,113,183 - 70,137,836 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01450,369,663 - 50,390,984 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11469,240,602 - 69,261,904 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1469,240,602 - 69,261,904 (-)Ensemblpanpan1.1panPan2
Slc10a1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864061,215,944 - 61,231,982 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493649512,959,077 - 12,975,755 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493649512,958,983 - 12,975,755 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC10A1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl793,397,608 - 93,421,985 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1793,400,037 - 93,421,989 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2799,679,201 - 99,699,835 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SLC10A1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12447,018,237 - 47,034,360 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2447,017,414 - 47,033,940 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605335,245,164 - 35,260,625 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Slc10a1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473431,287,394 - 31,311,357 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473431,287,539 - 31,307,339 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in SLC10A1
295 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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 6 6 6
Low 6 4 1 2
Below cutoff 5 5 10 6 6 6 8 7 8 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000026282   ⟹   ENSCAFP00000024409
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl843,521,747 - 43,546,274 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845007583   ⟹   ENSCAFP00845005990
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl843,749,716 - 43,773,832 (-)Ensembl
RefSeq Acc Id: XM_038483610   ⟹   XP_038339538
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1843,363,627 - 43,388,457 (-)NCBI
RefSeq Acc Id: XM_038545078   ⟹   XP_038401006
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0843,797,816 - 43,821,924 (-)NCBI
RefSeq Acc Id: XM_038609183   ⟹   XP_038465111
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0843,437,348 - 43,461,959 (-)NCBI
RefSeq Acc Id: XM_038674008   ⟹   XP_038529936
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0843,749,263 - 43,773,881 (-)NCBI
RefSeq Acc Id: XM_537494   ⟹   XP_537494
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1843,521,291 - 43,546,426 (-)NCBI
Dog10K_Boxer_Tasha843,210,224 - 43,234,841 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_537494   ⟸   XM_537494
- UniProtKB: A0A8C0SL30 (UniProtKB/TrEMBL),   A0A8C0JXA6 (UniProtKB/TrEMBL),   A0A8I3RTD6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000024409   ⟸   ENSCAFT00000026282
RefSeq Acc Id: XP_038339538   ⟸   XM_038483610
RefSeq Acc Id: XP_038465111   ⟸   XM_038609183
RefSeq Acc Id: XP_038529936   ⟸   XM_038674008
- UniProtKB: A0A8C0SL30 (UniProtKB/TrEMBL),   A0A8C0JXA6 (UniProtKB/TrEMBL),   A0A8I3RTD6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038401006   ⟸   XM_038545078
- UniProtKB: A0A8C0JXA6 (UniProtKB/TrEMBL),   A0A8C0SL30 (UniProtKB/TrEMBL),   A0A8I3RTD6 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845005990   ⟸   ENSCAFT00845007583

Promoters
RGD ID:13684261
Promoter ID:EPDNEW_C2329
Type:initiation region
Name:SLC10A1_1
Description:solute carrier family 10 member 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1843,546,374 - 43,546,434EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000016597 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030014333 UniProtKB/TrEMBL
  ENSCAFG00040014510 UniProtKB/TrEMBL
  ENSCAFG00845004225 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000026282.5 UniProtKB/TrEMBL
  ENSCAFT00030026505.1 UniProtKB/TrEMBL
  ENSCAFT00040026771.1 UniProtKB/TrEMBL
  ENSCAFT00845007583 ENTREZGENE
  ENSCAFT00845007583.1 UniProtKB/TrEMBL
Gene3D-CATH 1.20.1530.20 UniProtKB/TrEMBL
InterPro BilAc:Na_symport/Acr3 UniProtKB/TrEMBL
  Bilac:Na_transpt UniProtKB/TrEMBL
  Na+/solute_symporter_sf UniProtKB/TrEMBL
KEGG Report cfa:480372 UniProtKB/TrEMBL
NCBI Gene SLC10A1 ENTREZGENE
PANTHER PTHR10361 UniProtKB/TrEMBL
  PTHR10361:SF40 UniProtKB/TrEMBL
Pfam SBF UniProtKB/TrEMBL
UniProt A0A8C0JXA6 ENTREZGENE
  A0A8C0SL30 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3RTD6 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:46211 ENTREZGENE