Slco6c1 (solute carrier organic anion transporter family, member 6c1) - Rat Genome Database

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Gene: Slco6c1 (solute carrier organic anion transporter family, member 6c1) Rattus norvegicus
Analyze
Symbol: Slco6c1
Name: solute carrier organic anion transporter family, member 6c1
RGD ID: 708431
Description: Enables organic anion transmembrane transporter activity. Involved in organic anion transport. Predicted to be located in plasma membrane. Predicted to be part of CatSper complex. Predicted to be active in basolateral plasma membrane. Orthologous to human SLCO6A1 (solute carrier organic anion transporter family member 6A1); INTERACTS WITH ammonium chloride; bisphenol A; flavonoids.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: gonad-specific transporter 2; gonad-specific transporter-2; GST-2; LOC102554041; LOC287006; solute carrier organic anion transporter family member 6A1-like; testis-specific transporter TST-2
RGD Orthologs
Mouse
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr89104,947,509 - 105,028,079 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl9104,947,623 - 105,027,752 (-)EnsemblGRCr8
mRatBN7.2997,500,028 - 97,580,776 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl997,500,297 - 97,580,432 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx9105,929,620 - 106,011,642 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.09111,057,603 - 111,139,622 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.09109,401,008 - 109,483,022 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.09104,622,119 - 104,700,657 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl9104,622,115 - 104,719,077 (-)Ensemblrn6Rnor6.0
Rnor_5.09104,230,279 - 104,309,001 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4996,382,297 - 96,465,039 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera994,948,849 - 95,030,367 (-)NCBICelera
RGSC_v3.1996,591,776 - 96,674,519 (-)NCBI
Cytogenetic Map9q36NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

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. Interactions of cationic drugs and cardiac glycosides at the hepatic uptake level: studies in the rat in vivo, isolated perfused rat liver, isolated rat hepatocytes and oocytes expressing oatp2. Meijer DK and van Monffoort JE, Arch Pharm Res 2002 Aug;25(4):397-415.
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. GOA pipeline RGD automated data pipeline
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Identification and characterization of novel rat and human gonad-specific organic anion transporters. Suzuki T, etal., Mol Endocrinol 2003 Jul;17(7):1203-15. Epub 2003 Apr 3.

Genomics

Comparative Map Data
Slco6c1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr89104,947,509 - 105,028,079 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl9104,947,623 - 105,027,752 (-)EnsemblGRCr8
mRatBN7.2997,500,028 - 97,580,776 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl997,500,297 - 97,580,432 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx9105,929,620 - 106,011,642 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.09111,057,603 - 111,139,622 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.09109,401,008 - 109,483,022 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.09104,622,119 - 104,700,657 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl9104,622,115 - 104,719,077 (-)Ensemblrn6Rnor6.0
Rnor_5.09104,230,279 - 104,309,001 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4996,382,297 - 96,465,039 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera994,948,849 - 95,030,367 (-)NCBICelera
RGSC_v3.1996,591,776 - 96,674,519 (-)NCBI
Cytogenetic Map9q36NCBI
Slco6c1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39196,986,763 - 97,056,066 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl196,986,763 - 97,056,026 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38197,059,038 - 97,128,339 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl197,059,038 - 97,128,301 (-)Ensemblmm10GRCm38
MGSCv37198,956,026 - 99,024,880 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36198,889,855 - 98,958,709 (-)NCBIMGSCv36mm8
Celera199,940,987 - 100,009,923 (-)NCBICelera
Cytogenetic Map1DNCBI
cM Map147.76NCBI

Variants

.
Variants in Slco6c1
644 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:29
Count of miRNA genes:29
Interacting mature miRNAs:29
Transcripts:ENSRNOT00000018503
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1582203Gluco19Glucose level QTL 193.30.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)963376862108376862Rat
724515Uae16Urinary albumin excretion QTL 168urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)965657365108376720Rat
724547Cm21Cardiac mass QTL 212.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)986720043110356905Rat
2303178Bp334Blood pressure QTL 3343.70.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)986720043121768150Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)964220169109220169Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)944458256121768150Rat
1578760Cm53Cardiac mass QTL 533.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)964220169109220169Rat
1581580Uae34Urinary albumin excretion QTL 34urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)964220169109220169Rat
1300134Bp185Blood pressure QTL 1853.73arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)968875497121768150Rat
1354626Bvd1Brain ventricular dilatation QTL 13.730.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)983161999118999486Rat
4889852Pur26Proteinuria QTL 26150.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)985262459109044727Rat
7794784Mcs31Mammary carcinoma susceptibility QTL 312.98mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)985262459118999486Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)948718864108376862Rat
1578757Pur6Proteinuria QTL 63.30.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)964220169109220169Rat


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
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
6 1 6 29 26 22 10 6 10 6 43 25 1 16 1 27 12

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_173338 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008767361 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039083103 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039083104 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039083105 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039083106 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063266800 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063266802 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063266803 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063266804 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063266805 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063266806 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063266807 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063266808 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005488857 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF326113 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473997 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000009 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000018503   ⟹   ENSRNOP00000018503
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl9104,622,219 - 104,700,657 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000077480   ⟹   ENSRNOP00000068805
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl9104,947,623 - 105,027,752 (-)Ensembl
mRatBN7.2 Ensembl997,500,297 - 97,580,432 (-)Ensembl
Rnor_6.0 Ensembl9104,622,219 - 104,718,978 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000077596   ⟹   ENSRNOP00000074027
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl9104,622,115 - 104,719,077 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000081815   ⟹   ENSRNOP00000075161
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl9104,626,950 - 104,700,609 (-)Ensembl
RefSeq Acc Id: NM_173338   ⟹   NP_775460
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89104,947,623 - 105,027,752 (-)NCBI
mRatBN7.2997,500,297 - 97,580,432 (-)NCBI
Rnor_6.09104,622,219 - 104,700,657 (-)NCBI
Rnor_5.09104,230,279 - 104,309,001 (-)NCBI
RGSC_v3.4996,382,297 - 96,465,039 (-)RGD
Celera994,948,849 - 95,030,367 (-)RGD
Sequence:
RefSeq Acc Id: XM_039083103   ⟹   XP_038939031
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89104,947,509 - 105,028,034 (-)NCBI
mRatBN7.2997,500,053 - 97,580,765 (-)NCBI
RefSeq Acc Id: XM_039083104   ⟹   XP_038939032
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89104,947,509 - 105,028,067 (-)NCBI
mRatBN7.2997,500,028 - 97,580,775 (-)NCBI
RefSeq Acc Id: XM_039083105   ⟹   XP_038939033
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89104,997,234 - 105,028,073 (-)NCBI
mRatBN7.2997,551,804 - 97,580,776 (-)NCBI
RefSeq Acc Id: XM_039083106   ⟹   XP_038939034
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89104,982,971 - 105,028,029 (-)NCBI
mRatBN7.2997,535,666 - 97,580,763 (-)NCBI
RefSeq Acc Id: XM_063266800   ⟹   XP_063122870
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89104,947,509 - 105,028,061 (-)NCBI
RefSeq Acc Id: XM_063266802   ⟹   XP_063122872
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89104,947,509 - 105,028,066 (-)NCBI
RefSeq Acc Id: XM_063266803   ⟹   XP_063122873
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89104,973,393 - 105,028,064 (-)NCBI
RefSeq Acc Id: XM_063266804   ⟹   XP_063122874
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89104,947,509 - 105,028,075 (-)NCBI
RefSeq Acc Id: XM_063266805   ⟹   XP_063122875
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89104,947,509 - 105,028,079 (-)NCBI
RefSeq Acc Id: XM_063266806   ⟹   XP_063122876
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89104,947,509 - 105,028,028 (-)NCBI
RefSeq Acc Id: XM_063266807   ⟹   XP_063122877
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89104,997,972 - 105,028,029 (-)NCBI
RefSeq Acc Id: XM_063266808   ⟹   XP_063122878
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89104,947,509 - 105,028,071 (-)NCBI
RefSeq Acc Id: XR_005488857
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89104,973,244 - 105,028,064 (-)NCBI
mRatBN7.2997,525,926 - 97,580,774 (-)NCBI
RefSeq Acc Id: NP_775460   ⟸   NM_173338
- UniProtKB: Q8K4K9 (UniProtKB/TrEMBL),   A6JR55 (UniProtKB/TrEMBL),   G3V7R7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000018503   ⟸   ENSRNOT00000018503
Ensembl Acc Id: ENSRNOP00000074027   ⟸   ENSRNOT00000077596
Ensembl Acc Id: ENSRNOP00000068805   ⟸   ENSRNOT00000077480
Ensembl Acc Id: ENSRNOP00000075161   ⟸   ENSRNOT00000081815
RefSeq Acc Id: XP_038939032   ⟸   XM_039083104
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038939031   ⟸   XM_039083103
- Peptide Label: isoform X2
- UniProtKB: A6JR55 (UniProtKB/TrEMBL),   G3V7R7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038939034   ⟸   XM_039083106
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038939033   ⟸   XM_039083105
- Peptide Label: isoform X9
RefSeq Acc Id: XP_063122875   ⟸   XM_063266805
- Peptide Label: isoform X7
RefSeq Acc Id: XP_063122874   ⟸   XM_063266804
- Peptide Label: isoform X5
RefSeq Acc Id: XP_063122878   ⟸   XM_063266808
- Peptide Label: isoform X12
RefSeq Acc Id: XP_063122872   ⟸   XM_063266802
- Peptide Label: isoform X3
- UniProtKB: A6JR55 (UniProtKB/TrEMBL),   G3V7R7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063122870   ⟸   XM_063266800
- Peptide Label: isoform X1
- UniProtKB: A6JR55 (UniProtKB/TrEMBL),   G3V7R7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063122876   ⟸   XM_063266806
- Peptide Label: isoform X8
RefSeq Acc Id: XP_063122873   ⟸   XM_063266803
- Peptide Label: isoform X4
RefSeq Acc Id: XP_063122877   ⟸   XM_063266807
- Peptide Label: isoform X11
Protein Domains
Kazal-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2K9W9-F1-model_v2 AlphaFold A0A0G2K9W9 1-703 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:708431 AgrOrtholog
BioCyc Gene G2FUF-26587 BioCyc
Ensembl Genes ENSRNOG00000013792 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000077480 ENTREZGENE
  ENSRNOT00000077480.3 UniProtKB/TrEMBL
Gene3D-CATH 1.20.1250.20 UniProtKB/TrEMBL
InterPro Kazal_dom_sf UniProtKB/TrEMBL
  MFS_trans_sf UniProtKB/TrEMBL
  OA_transporter UniProtKB/TrEMBL
  Prot_inh_Kazal UniProtKB/TrEMBL
KEGG Report rno:287006 UniProtKB/TrEMBL
NCBI Gene 287006 ENTREZGENE
PANTHER OA_transporter UniProtKB/TrEMBL
  SOLUTE CARRIER ORGANIC ANION TRANSPORTER FAMILY, MEMBER 6C1 UniProtKB/TrEMBL
Pfam Kazal_2 UniProtKB/TrEMBL
  OATP UniProtKB/TrEMBL
PhenoGen Slco6c1 PhenoGen
PROSITE KAZAL_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000013792 RatGTEx
Superfamily-SCOP MFS_gen_substrate_transporter UniProtKB/TrEMBL
  SSF100895 UniProtKB/TrEMBL
UniProt A6JR55 ENTREZGENE, UniProtKB/TrEMBL
  G3V7R7 ENTREZGENE, UniProtKB/TrEMBL
  Q8K4K9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Slco6c1  solute carrier organic anion transporter family, member 6c1  LOC102554041  solute carrier organic anion transporter family member 6A1-like  Data merged from RGD:7627898 737654 PROVISIONAL
2013-12-18 LOC102554041  solute carrier organic anion transporter family member 6A1-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2004-09-10 Slco6c1  solute carrier organic anion transporter family, member 6c1  LOC287006  testis-specific transporter TST-2  Symbol and Name updated 1299863 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression high expression in Sertoli cells, spermatogonia, and Leydig cells 1302354
gene_expression low expression in epididymis and ovary 1302354
gene_function transports taurocholic acid, dehydroepiandrosterone sulfate, and T4 1302354