Slc10a3 (solute carrier family 10, member 3) - Rat Genome Database

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Gene: Slc10a3 (solute carrier family 10, member 3) Rattus norvegicus
Analyze
Symbol: Slc10a3
Name: solute carrier family 10, member 3
RGD ID: 1563513
Description: Predicted to enable bile acid:sodium symporter activity. Predicted to be involved in bile acid and bile salt transport. Predicted to act upstream of or within response to retinoic acid. Predicted to be located in membrane. Orthologous to human SLC10A3 (solute carrier family 10 member 3); INTERACTS WITH 3,4-methylenedioxymethamphetamine; bisphenol A; cobalt dichloride.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC501665; P3 protein; similar to protein P3; solute carrier family 10 (sodium/bile acid cotransporter family), member 3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
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
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

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. GOA pipeline RGD automated data pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:18400104  


Genomics

Comparative Map Data
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
(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
(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
(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

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:34
Count of miRNA genes:34
Interacting mature miRNAs:34
Transcripts:ENSRNOT00000056315
Prediction methods:Miranda, 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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10059603Bw174Body weight QTL 1743.40.025body mass (VT:0001259)body weight (CMO:0000012)X113937816152453651Rat
634346Insul4Insulin level QTL 40blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)X126975089152453651Rat

Markers in Region
Slc10a3  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X152,155,056 - 152,155,927 (-)MAPPERmRatBN7.2
Rnor_6.0X156,339,086 - 156,339,956NCBIRnor6.0
Rnor_5.01152,079,223 - 152,080,093UniSTSRnor5.0
RGSC_v3.4X160,237,467 - 160,238,337UniSTSRGSC3.4
Celera1135,740,729 - 135,741,599UniSTS
Cytogenetic MapXq37UniSTS


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 renal system reproductive system respiratory system appendage
High
Medium 3 30 10 6 7 6 51 27 33 11
Low 13 47 35 12 35 8 11 23 8 8 8
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000082124   ⟹   ENSRNOP00000075188
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX152,154,759 - 152,158,579 (-)Ensembl
Rnor_6.0 EnsemblX156,336,450 - 156,340,234 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000095027   ⟹   ENSRNOP00000087740
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX152,151,076 - 152,158,705 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000104026   ⟹   ENSRNOP00000083345
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX152,151,237 - 152,162,958 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000107598   ⟹   ENSRNOP00000083069
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX152,154,793 - 152,158,539 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000116820   ⟹   ENSRNOP00000092346
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX152,151,076 - 152,158,705 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000119658   ⟹   ENSRNOP00000078591
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX152,151,242 - 152,158,507 (-)Ensembl
RefSeq Acc Id: NM_001024368   ⟹   NP_001019539
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X157,306,043 - 157,309,849 (-)NCBI
mRatBN7.2X152,154,757 - 152,158,563 (-)NCBI
Rnor_6.0X156,336,450 - 156,340,256 (+)NCBI
Rnor_5.01152,075,855 - 152,080,393 (+)NCBI
RGSC_v3.4X160,234,831 - 160,238,637 (+)RGD
Celera1135,738,093 - 135,741,899 (+)NCBI
Sequence:
RefSeq Acc Id: NP_001019539   ⟸   NM_001024368
- UniProtKB: Q5RJP6 (UniProtKB/TrEMBL),   A0A0G2K9Z0 (UniProtKB/TrEMBL),   A0A8I5ZW70 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000075188   ⟸   ENSRNOT00000082124
RefSeq Acc Id: ENSRNOP00000083345   ⟸   ENSRNOT00000104026
RefSeq Acc Id: ENSRNOP00000078591   ⟸   ENSRNOT00000119658
RefSeq Acc Id: ENSRNOP00000083069   ⟸   ENSRNOT00000107598
RefSeq Acc Id: ENSRNOP00000087740   ⟸   ENSRNOT00000095027
RefSeq Acc Id: ENSRNOP00000092346   ⟸   ENSRNOT00000116820

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5RJP6-F1-model_v2 AlphaFold Q5RJP6 1-473 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13702040
Promoter ID:EPDNEW_R12564
Type:multiple initiation site
Name:Slc10a3_1
Description:solute carrier family 10, member 3
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0X156,336,441 - 156,336,501EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1563513 AgrOrtholog
BioCyc Gene G2FUF-621 BioCyc
Ensembl Genes ENSRNOG00000060580 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000082124.2 UniProtKB/TrEMBL
  ENSRNOT00000095027.1 UniProtKB/TrEMBL
  ENSRNOT00000104026.1 UniProtKB/TrEMBL
  ENSRNOT00000107598 ENTREZGENE
  ENSRNOT00000107598.1 UniProtKB/TrEMBL
  ENSRNOT00000116820.1 UniProtKB/TrEMBL
  ENSRNOT00000119658.1 UniProtKB/TrEMBL
Gene3D-CATH 1.20.1530.20 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7304843 IMAGE-MGC_LOAD
InterPro BilAc/Na_symport UniProtKB/TrEMBL
  Na+/solute_symporter_sf UniProtKB/TrEMBL
KEGG Report rno:501665 UniProtKB/TrEMBL
MGC_CLONE MGC:105543 IMAGE-MGC_LOAD
NCBI Gene 501665 ENTREZGENE
PANTHER UBIQUITIN-LIKE PROTEIN 4A UniProtKB/TrEMBL
  UBIQUITIN-LIKE PROTEIN 4A UniProtKB/TrEMBL
Pfam SBF UniProtKB/TrEMBL
PhenoGen Slc10a3 PhenoGen
RatGTEx ENSRNOG00000060580 RatGTEx
UniProt A0A0G2K9Z0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5ZW70 ENTREZGENE, UniProtKB/TrEMBL
  Q5RJP6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-08-02 Slc10a3  solute carrier family 10, member 3  Slc10a3  solute carrier family 10 (sodium/bile acid cotransporter family), member 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-05 Slc10a3  solute carrier family 10 (sodium/bile acid cotransporter family), member 3  LOC501665  similar to protein P3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-02-09 LOC501665  similar to protein P3      Symbol and Name status set to provisional 70820 PROVISIONAL