Slc10a3 (solute carrier family 10 (sodium/bile acid cotransporter family), member 3) - Rat Genome Database

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Gene: Slc10a3 (solute carrier family 10 (sodium/bile acid cotransporter family), member 3) Mus musculus
Analyze
Symbol: Slc10a3
Name: solute carrier family 10 (sodium/bile acid cotransporter family), member 3
RGD ID: 1623003
MGI Page MGI
Description: Predicted to enable bile acid:sodium symporter activity. Acts upstream of or within response to retinoic acid. Predicted to be located in membrane. Is expressed in several structures, including brain ventricle and choroid plexus; facial bone primordium; genitourinary system; integumental system; and lung. Orthologous to human SLC10A3 (solute carrier family 10 member 3).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: DXHXS253; DXHXS253E; DXS253E; DXS253Eh; DXSmhG2; DXSmhG28; MGC36271; MGC38638; P; P3; solute carrier family 10 member 3; solute carrier family 10, member 3
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X73,412,823 - 73,416,955 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX73,412,823 - 73,416,955 (-)EnsemblGRCm39 Ensembl
GRCm38X74,369,217 - 74,373,349 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX74,369,217 - 74,373,349 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X71,614,556 - 71,618,595 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X70,621,937 - 70,625,976 (-)NCBIMGSCv36mm8
CeleraX65,623,032 - 65,627,071 (-)NCBICelera
Cytogenetic MapXA7.3NCBI
cM MapX38.0NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
membrane  (IEA)

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:1354645   PMID:1543903   PMID:1679744   PMID:1973144   PMID:2296595   PMID:2721933   PMID:2882509   PMID:2922282   PMID:3186440   PMID:3243547   PMID:7490070   PMID:8001979  
PMID:8088815   PMID:8093671   PMID:8432533   PMID:8449515   PMID:8464923   PMID:8889548   PMID:9499428   PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851  
PMID:12477932   PMID:14681479   PMID:14691545   PMID:15489334   PMID:15782199   PMID:16141072   PMID:16141073   PMID:18400104   PMID:18799693   PMID:18973680   PMID:21267068   PMID:21873635  
PMID:38355793  


Genomics

Comparative Map Data
Slc10a3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X73,412,823 - 73,416,955 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX73,412,823 - 73,416,955 (-)EnsemblGRCm39 Ensembl
GRCm38X74,369,217 - 74,373,349 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX74,369,217 - 74,373,349 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X71,614,556 - 71,618,595 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X70,621,937 - 70,625,976 (-)NCBIMGSCv36mm8
CeleraX65,623,032 - 65,627,071 (-)NCBICelera
Cytogenetic MapXA7.3NCBI
cM MapX38.0NCBI
SLC10A3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X154,487,311 - 154,490,629 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX154,487,306 - 154,490,690 (-)EnsemblGRCh38hg38GRCh38
GRCh37X153,715,650 - 153,718,968 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X153,368,842 - 153,372,189 (-)NCBINCBI36Build 36hg18NCBI36
Build 34X153,279,351 - 153,282,699NCBI
CeleraX153,876,701 - 153,880,053 (-)NCBICelera
Cytogenetic MapXq28NCBI
HuRefX142,292,818 - 142,296,107 (-)NCBIHuRef
CHM1_1X153,627,295 - 153,630,647 (-)NCBICHM1_1
T2T-CHM13v2.0X152,723,820 - 152,727,138 (-)NCBIT2T-CHM13v2.0
Slc10a3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X157,306,043 - 157,309,849 (-)NCBIGRCr8
mRatBN7.2X152,154,757 - 152,158,563 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX152,151,076 - 152,162,958 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX154,295,882 - 154,299,688 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X157,858,689 - 157,862,495 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X155,530,915 - 155,534,721 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X156,335,385 - 156,340,256 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX156,336,450 - 156,340,234 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01152,075,855 - 152,080,393 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X160,234,831 - 160,238,637 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1135,738,093 - 135,741,899 (+)NCBICelera
Cytogenetic MapXq37NCBI
Slc10a3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555801,002,029 - 1,005,673 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555801,002,029 - 1,005,673 (-)NCBIChiLan1.0ChiLan1.0
SLC10A3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X154,461,710 - 154,465,039 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X154,465,314 - 154,468,644 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X143,929,086 - 143,932,406 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X153,800,354 - 153,803,680 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX153,800,354 - 153,803,653 (-)Ensemblpanpan1.1panPan2
SLC10A3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X122,197,049 - 122,201,103 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX122,197,289 - 122,200,219 (-)EnsemblCanFam3.1canFam3CanFam3.1
ROS_Cfam_1.0X125,338,706 - 125,342,598 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX125,338,711 - 125,342,615 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X121,107,704 - 121,111,596 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X123,622,782 - 123,626,674 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X123,384,553 - 123,388,446 (-)NCBIUU_Cfam_GSD_1.0
Slc10a3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X119,504,209 - 119,508,247 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049368091,241,986 - 1,246,266 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049368091,241,980 - 1,245,986 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC10A3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX125,010,131 - 125,011,928 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X125,010,128 - 125,013,992 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X143,571,480 - 143,575,323 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SLC10A3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X128,736,793 - 128,741,400 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX128,736,991 - 128,738,424 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606566,725,602 - 66,729,241 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Slc10a3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624946959,051 - 960,502 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624946958,850 - 961,163 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Slc10a3
101 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:580
Count of miRNA genes:142
Interacting mature miRNAs:148
Transcripts:ENSMUST00000037967, ENSMUST00000073067, ENSMUST00000114146, ENSMUST00000114147
Prediction methods:Miranda, Pita, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357433Dbts2_mdiabetes 2 (mouse)Not determinedX7226295150107038Mouse
13208567Bmiq12_mbody mass index QTL 12 (mouse)X3526365377043606Mouse
1300794Spha2_msperm head anomaly 2 (mouse)Not determinedX3992149886260137Mouse
4142200Rtwq1_mreduced testis weight QTL 1 (mouse)Not determined4147706075477203Mouse
1301278Bdln1_mbody length 1 (mouse)Not determinedX4170210675702218Mouse
1300702Fcsa4_mfemoral cross-sectional area 4 (mouse)Not determinedX4602744480027567Mouse
4141630Gct6_mgranulosa cell tumorigenesis 6 (mouse)Not determined47179121129764756Mouse
25314311Syncl3_msynaptonemal complex length 3 (mouse)X5198887789743606Mouse
13824980Ferq1_mgenetic fertility QTL 1 (mouse)X54045360148782996Mouse
10412108Desp5_mdespair 5 (mouse)Not determinedX5472235188722351Mouse
13464140Hdlq108_mHDL QTL 108 (mouse)X5777196091771960Mouse
25314316Mlh1fc3_mMLH1 foci count 3 (mouse)X6134360689843606Mouse
25314318Sccor2_msynaptonemal complex length to mean MLH1 count ratio 2 (mouse)X7054360696543606Mouse
1357730Hstx1_mhybrid sterility, X chromosome 1 (mouse)Not determinedX7145385277600812Mouse
4141665Mhysq2_mmale hybrid sterility QTL 2 (mouse)Not determined71453852139203212Mouse
12879918Shm4_msperm head morphology 4 (mouse)X72072050102062720Mouse

Markers in Region
Slc10a3  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38X74,369,541 - 74,370,411UniSTSGRCm38
MGSCv37X71,614,880 - 71,615,750UniSTSGRCm37
CeleraX65,623,356 - 65,624,226UniSTS
Cytogenetic MapXA7.3UniSTS
cM MapX30.01UniSTS


Expression


Sequence


RefSeq Acc Id: ENSMUST00000037967   ⟹   ENSMUSP00000045150
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX73,412,823 - 73,416,955 (-)Ensembl
GRCm38.p6 EnsemblX74,369,217 - 74,373,349 (-)Ensembl
RefSeq Acc Id: ENSMUST00000073067   ⟹   ENSMUSP00000072818
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX73,412,823 - 73,416,911 (-)Ensembl
GRCm38.p6 EnsemblX74,369,217 - 74,373,305 (-)Ensembl
RefSeq Acc Id: ENSMUST00000114146   ⟹   ENSMUSP00000109783
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX73,412,823 - 73,416,852 (-)Ensembl
GRCm38.p6 EnsemblX74,369,217 - 74,373,246 (-)Ensembl
RefSeq Acc Id: ENSMUST00000114147   ⟹   ENSMUSP00000109784
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX73,412,823 - 73,414,617 (-)Ensembl
GRCm38.p6 EnsemblX74,369,217 - 74,371,011 (-)Ensembl
RefSeq Acc Id: NM_001256104   ⟹   NP_001243033
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X73,412,823 - 73,416,955 (-)NCBI
GRCm38X74,369,217 - 74,373,349 (-)ENTREZGENE
CeleraX65,623,032 - 65,627,164 (-)ENTREZGENE
cM MapX ENTREZGENE
Sequence:
RefSeq Acc Id: NM_145406   ⟹   NP_663381
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X73,412,823 - 73,416,955 (-)NCBI
GRCm38X74,369,217 - 74,373,349 (-)ENTREZGENE
MGSCv37X71,614,556 - 71,618,595 (-)RGD
CeleraX65,623,032 - 65,627,164 (-)ENTREZGENE
cM MapX ENTREZGENE
Sequence:
RefSeq Acc Id: NP_663381   ⟸   NM_145406
- Peptide Label: precursor
- UniProtKB: Q8QZR2 (UniProtKB/Swiss-Prot),   P21129 (UniProtKB/Swiss-Prot),   A0A158SIT6 (UniProtKB/TrEMBL),   J3JSA1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001243033   ⟸   NM_001256104
- Peptide Label: precursor
- UniProtKB: Q8QZR2 (UniProtKB/Swiss-Prot),   P21129 (UniProtKB/Swiss-Prot),   A0A158SIT6 (UniProtKB/TrEMBL),   J3JSA1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000072818   ⟸   ENSMUST00000073067
RefSeq Acc Id: ENSMUSP00000109783   ⟸   ENSMUST00000114146
RefSeq Acc Id: ENSMUSP00000109784   ⟸   ENSMUST00000114147
RefSeq Acc Id: ENSMUSP00000045150   ⟸   ENSMUST00000037967

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P21129-F1-model_v2 AlphaFold P21129 1-473 view protein structure

Promoters
RGD ID:6846365
Promoter ID:MM_KWN:60815
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain,   Kidney
Transcripts:ENSMUST00000114147
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36X71,615,694 - 71,616,194 (-)MPROMDB
RGD ID:6846366
Promoter ID:MM_KWN:60816
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   3T3L1_Day6,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6
Transcripts:ENSMUST00000073067,   ENSMUST00000114146,   OTTMUST00000042862
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36X71,618,439 - 71,618,939 (-)MPROMDB
RGD ID:13680796
Promoter ID:EPDNEW_M24547
Type:initiation region
Name:Slc10a3_1
Description:Mus musculus solute carrier family 10 (sodium/bile acid cotransporterfamily), member 3 , transcript variant 2, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38X74,373,270 - 74,373,330EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:95048 AgrOrtholog
Ensembl Genes ENSMUSG00000032806 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000037967 ENTREZGENE
  ENSMUST00000037967.6 UniProtKB/Swiss-Prot
  ENSMUST00000073067 ENTREZGENE
  ENSMUST00000073067.11 UniProtKB/Swiss-Prot
  ENSMUST00000114146.8 UniProtKB/Swiss-Prot
  ENSMUST00000114147.2 UniProtKB/TrEMBL
Gene3D-CATH 1.20.1530.20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro BilAc:Na_symport/Acr3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Na+/solute_symporter_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:214601 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:95048 ENTREZGENE
NCBI Gene 214601 ENTREZGENE
PANTHER UBIQUITIN-LIKE PROTEIN 4A UniProtKB/Swiss-Prot
  UBIQUITIN-LIKE PROTEIN 4A UniProtKB/Swiss-Prot
  UBIQUITIN-LIKE PROTEIN 4A UniProtKB/TrEMBL
  UBIQUITIN-LIKE PROTEIN 4A UniProtKB/TrEMBL
Pfam SBF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Slc10a3 PhenoGen
UniProt A0A158SIT6 ENTREZGENE, UniProtKB/TrEMBL
  J3JSA1 ENTREZGENE, UniProtKB/TrEMBL
  P21129 ENTREZGENE, UniProtKB/Swiss-Prot
  Q8QZR2 ENTREZGENE
UniProt Secondary Q8QZR2 UniProtKB/Swiss-Prot