Slco1a6 (solute carrier organic anion transporter family, member 1a6) - Rat Genome Database

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Gene: Slco1a6 (solute carrier organic anion transporter family, member 1a6) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Slco1a6
Name: solute carrier organic anion transporter family, member 1a6
RGD ID: 69304
Description: Predicted to enable bile acid transmembrane transporter activity and sodium-independent organic anion transmembrane transporter activity. Involved in liver regeneration. Predicted to be located in plasma membrane. Predicted to be active in basolateral plasma membrane. Orthologous to human SLCO1A2 (solute carrier organic anion transporter family member 1A2); PARTICIPATES IN multispecific organic anion transporter mediated transport pathway; bile acid transport pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 2,2',4,4'-Tetrabromodiphenyl ether; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: kidney-specific organic anion transporting polypeptide 5; kidney-specific organic anion-transporting polypeptide 5; OATP-5; Oatp5; organic anion transporting polypeptide 5; Slc21a13; solute carrier family (organic anion transporter) member 13; solute carrier family 21 member 13; solute carrier family 21, member 13; solute carrier organic anion transporter family member 1A6
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84176,803,025 - 176,848,311 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl4176,803,226 - 176,839,032 (-)EnsemblGRCr8
mRatBN7.24175,072,143 - 175,107,950 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4175,072,143 - 175,117,263 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx4181,367,044 - 181,402,851 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04177,151,336 - 177,187,151 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04175,771,877 - 175,807,680 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.04176,345,671 - 176,390,729 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4176,345,671 - 176,381,477 (-)Ensemblrn6Rnor6.0
Rnor_5.04240,560,520 - 240,605,980 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.44179,688,189 - 179,723,995 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera4163,606,072 - 163,641,920 (-)NCBICelera
RGSC_v3.14179,933,312 - 179,969,119 (-)NCBI
Cytogenetic Map4q44NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Oligonucleotide microarray analysis of differential transporter regulation in the regenerating rat liver. Dransfeld O, etal., Liver Int. 2005 Dec;25(6):1243-58.
2. 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.
3. Transport of xenobiotics across the blood-brain barrier. Hagenbuch B, etal., News Physiol Sci 2002 Dec;17:231-4.
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
6. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
7. GOA pipeline RGD automated data pipeline
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
9. Comprehensive gene review and curation RGD comprehensive gene curation
10. Information Derived from GenBank Report RGD, Sept. 2003

Genomics

Variants

.
Variants in Slco1a6
178 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:243
Count of miRNA genes:144
Interacting mature miRNAs:156
Transcripts:ENSRNOT00000048367
Prediction methods:Microtar, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
6478754Anxrr43Anxiety related response QTL 430.14035locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4146370897184426481Rat
724558Plsm2Polydactyly-luxate syndrome (PLS) morphotypes QTL 20.0003hindlimb integrity trait (VT:0010563)hind foot phalanges count (CMO:0001949)4134095016179095016Rat
6478693Anxrr32Anxiety related response QTL 320.00092locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4146370897184426481Rat
6478757Anxrr44Anxiety related response QTL 440.01087locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
1331738Bp209Blood pressure QTL 2092.979arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)4140059299181024663Rat
6478700Anxrr33Anxiety related response QTL 330.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4146370897184426481Rat
1298524Oia8Oil induced arthritis QTL 8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4140059299184426481Rat
10053718Scort25Serum corticosterone level QTL 252.150.0097blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)4157292416184426481Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)460916264184426481Rat
10401796Kidm48Kidney mass QTL 48kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)4147299608184426481Rat
6478718Anxrr34Anxiety related response QTL 340.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4146370897184426481Rat
6478782Anxrr52Anxiety related response QTL 520.02091locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
1300109Rf13Renal function QTL 133.91renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)4176806581181925369Rat
6478720Alc23Alcohol consumption QTL 230.00509drinking behavior trait (VT:0001422)ethanol drink intake rate to body weight ratio (CMO:0001616)4155834926184426481Rat
6478785Anxrr53Anxiety related response QTL 530.01397locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)4100752691179366077Rat
1581566Eae21Experimental allergic encephalomyelitis QTL 216.2body mass (VT:0001259)maximum body weight loss to initial body weight ratio (CMO:0001400)4137447185182447185Rat
1578674Bmd12Bone mineral density QTL 123.8femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)4137430611182430611Rat
6478728Anxrr36Anxiety related response QTL 360.01061locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)460916264184426481Rat
634342Cia24Collagen induced arthritis QTL 244.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4148121375176967367Rat
6478733Anxrr37Anxiety related response QTL 370.00095locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
61362Oia2Oil induced arthritis QTL 20.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4140059299184426481Rat
6478737Anxrr38Anxiety related response QTL 380.00159locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
2293659Bmd35Bone mineral density QTL 354.50.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)4160623982184426481Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)412212457182430611Rat
6478748Anxrr42Anxiety related response QTL 420.28008locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4146370897184426481Rat

Markers in Region
PMC19316P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24174,877,453 - 174,877,836 (+)MAPPERmRatBN7.2
mRatBN7.24175,072,367 - 175,072,751 (+)MAPPERmRatBN7.2
Rnor_6.04176,345,896 - 176,346,279NCBIRnor6.0
Rnor_6.04176,158,583 - 176,158,965NCBIRnor6.0
Rnor_5.04240,560,748 - 240,561,131UniSTSRnor5.0
Rnor_5.04240,374,761 - 240,375,143UniSTSRnor5.0
RGSC_v3.44179,431,605 - 179,431,987UniSTSRGSC3.4
RGSC_v3.44179,688,414 - 179,688,797UniSTSRGSC3.4
Celera4163,606,297 - 163,606,680UniSTS
Celera4163,412,591 - 163,412,973UniSTS
Cytogenetic Map4q44UniSTS
AU046396  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24118,958,737 - 118,958,825 (+)MAPPERmRatBN7.2
mRatBN7.24175,083,531 - 175,084,431 (+)MAPPERmRatBN7.2
Rnor_6.04176,357,062 - 176,357,961NCBIRnor6.0
Rnor_6.04118,313,229 - 118,313,316NCBIRnor6.0
Rnor_5.04240,571,914 - 240,572,813UniSTSRnor5.0
Rnor_5.04182,884,479 - 182,884,566UniSTSRnor5.0
RGSC_v3.44120,705,134 - 120,705,221UniSTSRGSC3.4
RGSC_v3.44179,699,580 - 179,700,479UniSTSRGSC3.4
Celera4163,617,469 - 163,618,368UniSTS
Celera4107,929,536 - 107,929,623UniSTS
Cytogenetic Map4q44UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
1 3 4 23 45 51 35 10 35 2 139 19 17 81 54 16 3 3

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_130736 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006237650 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592920 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592921 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592922 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592923 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592924 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592925 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592926 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592927 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063286766 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063286767 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC144687 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF053317 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473964 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000004 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000048367   ⟹   ENSRNOP00000039792
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4176,803,226 - 176,839,032 (-)Ensembl
mRatBN7.2 Ensembl4175,072,143 - 175,117,263 (-)Ensembl
Rnor_6.0 Ensembl4176,345,671 - 176,381,477 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000051461   ⟹   ENSRNOP00000050159
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4176,803,226 - 176,839,032 (-)Ensembl
mRatBN7.2 Ensembl4175,072,143 - 175,107,950 (-)Ensembl
RefSeq Acc Id: NM_130736   ⟹   NP_570092
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84176,803,226 - 176,839,032 (-)NCBI
mRatBN7.24175,072,143 - 175,107,950 (-)NCBI
Rnor_6.04176,345,671 - 176,381,477 (-)NCBI
Rnor_5.04240,560,520 - 240,605,980 (-)NCBI
RGSC_v3.44179,688,189 - 179,723,995 (-)RGD
Celera4163,606,072 - 163,641,920 (-)RGD
Sequence:
RefSeq Acc Id: XM_063286766   ⟹   XP_063142836
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84176,803,025 - 176,848,311 (-)NCBI
RefSeq Acc Id: XM_063286767   ⟹   XP_063142837
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84176,803,227 - 176,836,866 (-)NCBI
Protein Sequences
Protein RefSeqs NP_570092 (Get FASTA)   NCBI Sequence Viewer  
  XP_063142836 (Get FASTA)   NCBI Sequence Viewer  
  XP_063142837 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAF21711 (Get FASTA)   NCBI Sequence Viewer  
  EDM01510 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000039792
GenBank Protein Q9QYE2 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_570092   ⟸   NM_130736
- UniProtKB: Q9QYE2 (UniProtKB/Swiss-Prot),   A6IMS9 (UniProtKB/TrEMBL),   A0A8L2UMB7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000039792   ⟸   ENSRNOT00000048367
Ensembl Acc Id: ENSRNOP00000050159   ⟸   ENSRNOT00000051461
RefSeq Acc Id: XP_063142836   ⟸   XM_063286766
- Peptide Label: isoform X1
- UniProtKB: A0A8L2UMB7 (UniProtKB/TrEMBL),   A0A8L2ULI3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063142837   ⟸   XM_063286767
- Peptide Label: isoform X2
- UniProtKB: A0A8L2UMB7 (UniProtKB/TrEMBL)
Protein Domains
Kazal-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9QYE2-F1-model_v2 AlphaFold Q9QYE2 1-670 view protein structure

Transcriptome

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

Promoters
RGD ID:13693483
Promoter ID:EPDNEW_R4007
Type:single initiation site
Name:Slco1a6_1
Description:solute carrier organic anion transporter family, member 1a6
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_6.04176,381,477 - 176,381,537EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:69304 AgrOrtholog
BioCyc Gene G2FUF-42501 BioCyc
Ensembl Genes ENSRNOG00000030894 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000048367 ENTREZGENE
Gene3D-CATH 1.20.1250.20 UniProtKB/Swiss-Prot
InterPro Kazal_dom UniProtKB/Swiss-Prot
  Kazal_dom_sf UniProtKB/Swiss-Prot
  MFS_trans_sf UniProtKB/Swiss-Prot
  OATP UniProtKB/Swiss-Prot
KEGG Report rno:84608 UniProtKB/Swiss-Prot
NCBI Gene 84608 ENTREZGENE
PANTHER PTHR11388 UniProtKB/Swiss-Prot
  SOLUTE CARRIER ORGANIC ANION TRANSPORTER FAMILY MEMBER 1A6 UniProtKB/Swiss-Prot
Pfam Kazal_2 UniProtKB/Swiss-Prot
  OATP UniProtKB/Swiss-Prot
PhenoGen Slco1a6 PhenoGen
PROSITE KAZAL_2 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000030894 RatGTEx
Superfamily-SCOP SSF100895 UniProtKB/Swiss-Prot
  SSF103473 UniProtKB/Swiss-Prot
UniProt A0A8L2ULI3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8L2UMB7 ENTREZGENE, UniProtKB/TrEMBL
  A6IMS9 ENTREZGENE, UniProtKB/TrEMBL
  Q9QYE2 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-10-28 Slco1a6  solute carrier organic anion transporter family, member 1a6  Slc21a13  solute carrier family 21, member 13  Symbol and Name updated to reflect Human and Mouse nomenclature 1299863 APPROVED
2002-06-10 Slc21a13  solute carrier family 21, member 13      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference