Slco6b1 (solute carrier organic anion transporter family member 6B1) - Rat Genome Database

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Gene: Slco6b1 (solute carrier organic anion transporter family member 6B1) Rattus norvegicus
Analyze
Symbol: Slco6b1
Name: solute carrier organic anion transporter family member 6B1
RGD ID: 620278
Description: Predicted to enable sodium-independent organic anion transmembrane transporter activity. Predicted to be involved in sodium-independent organic anion transport. Predicted to be active in basolateral plasma membrane. Orthologous to human SLCO6A1 (solute carrier organic anion transporter family member 6A1); INTERACTS WITH acrylamide; ammonium chloride; bisphenol A.
Type: ncrna (Ensembl: protein-coding)
RefSeq Status: VALIDATED
Previously known as: gonad-specific transporter 1; GST-1; LOC102554121; solute carrier organic anion transporter family member 6A1; solute carrier organic anion transporter family member 6A1-like; solute carrier organic anion transporter family, member 6b1; testis-specific transporter TST1; Tst1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr89104,713,945 - 104,794,649 (-)NCBIGRCr8
mRatBN7.2997,266,655 - 97,347,336 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl997,271,334 - 97,347,336 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx9105,697,806 - 105,778,502 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.09110,825,778 - 110,906,476 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.09109,169,188 - 109,249,885 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.09104,388,232 - 104,468,005 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl9104,392,850 - 104,467,973 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.09103,998,203 - 104,078,156 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4996,130,052 - 96,211,483 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1996,339,531 - 96,420,963 (-)NCBI
Celera994,715,667 - 94,796,220 (-)NCBICelera
Cytogenetic Map9q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Xenobiotic and Endobiotic Transporter mRNA Expression in the Blood-Testis Barrier. Augustine LM, etal., Drug Metab Dispos 2004 Oct 19;.
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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
5. GOA pipeline RGD automated data pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. 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
Slco6b1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr89104,713,945 - 104,794,649 (-)NCBIGRCr8
mRatBN7.2997,266,655 - 97,347,336 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl997,271,334 - 97,347,336 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx9105,697,806 - 105,778,502 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.09110,825,778 - 110,906,476 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.09109,169,188 - 109,249,885 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.09104,388,232 - 104,468,005 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl9104,392,850 - 104,467,973 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.09103,998,203 - 104,078,156 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4996,130,052 - 96,211,483 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1996,339,531 - 96,420,963 (-)NCBI
Celera994,715,667 - 94,796,220 (-)NCBICelera
Cytogenetic Map9q36NCBI
SLCO6A1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385102,371,774 - 102,499,001 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5102,371,774 - 102,499,016 (-)EnsemblGRCh38hg38GRCh38
GRCh375101,707,478 - 101,834,705 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365101,735,550 - 101,862,619 (-)NCBINCBI36Build 36hg18NCBI36
Build 345101,735,552 - 101,862,590NCBI
Celera597,655,507 - 97,782,570 (-)NCBICelera
Cytogenetic Map5q21.1NCBI
HuRef596,889,294 - 97,016,364 (-)NCBIHuRef
CHM1_15101,139,407 - 101,267,316 (-)NCBICHM1_1
T2T-CHM13v2.05102,879,844 - 103,007,066 (-)NCBIT2T-CHM13v2.0
Slco6b1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39196,833,901 - 96,925,285 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl196,849,643 - 96,924,962 (-)EnsemblGRCm39 Ensembl
GRCm39 Ensembl196,833,901 - 96,925,302 (-)EnsemblGRCm39 Ensembl
GRCm38196,906,176 - 96,997,560 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl196,906,176 - 96,997,577 (-)EnsemblGRCm38mm10GRCm38
MGSCv37198,802,753 - 98,894,137 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36198,736,582 - 98,827,966 (-)NCBIMGSCv36mm8
Celera199,787,550 - 99,879,228 (-)NCBICelera
Cytogenetic Map1DNCBI
cM Map147.76NCBI
Slco6a1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541811,451,576 - 11,517,046 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541811,451,441 - 11,516,950 (+)NCBIChiLan1.0ChiLan1.0
SLCO6A1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2497,646,590 - 97,774,784 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1595,800,236 - 95,928,430 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0597,718,786 - 97,847,425 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15103,420,048 - 103,546,899 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5103,419,757 - 103,546,724 (-)Ensemblpanpan1.1panPan2
SLCO6A1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.138,632,830 - 8,724,702 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl38,632,079 - 8,724,580 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha310,036,754 - 10,133,948 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.038,520,116 - 8,614,783 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl38,519,588 - 8,614,744 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.138,459,243 - 8,554,481 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.038,484,083 - 8,578,469 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.038,638,671 - 8,732,854 (+)NCBIUU_Cfam_GSD_1.0
Slco6a1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213163,815,736 - 163,955,909 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049365232,018,621 - 2,139,918 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLCO6A1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl2107,921,987 - 108,017,725 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.12107,920,518 - 108,017,675 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22112,015,152 - 112,112,744 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SLCO6A1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1235,832,002 - 5,966,368 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl235,833,406 - 5,965,068 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660368,375,022 - 8,514,334 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Slco6a1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474320,459,064 - 20,525,473 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474320,459,147 - 20,525,024 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Slco6b1
771 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:123
Count of miRNA genes:97
Interacting mature miRNAs:103
Transcripts:ENSRNOT00000026099
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)925268044114175309Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)925661188100929786Rat
1578760Cm53Cardiac mass QTL 533.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)956771635101771635Rat
724515Uae16Urinary albumin excretion QTL 168urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)958163035100929646Rat
1300134Bp185Blood pressure QTL 1853.73arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)961381434104821652Rat
61385Edpm9Estrogen-dependent pituitary mass QTL 93.430.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)963869687108869687Rat
731171Glom6Glomerulus QTL 62.80.0003kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)964573531109573531Rat
1354626Bvd1Brain ventricular dilatation QTL 13.730.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)975712843111552878Rat
4889852Pur26Proteinuria QTL 26150.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)977813894101597663Rat
7794784Mcs31Mammary carcinoma susceptibility QTL 312.98mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)977813894111552878Rat
724547Cm21Cardiac mass QTL 212.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)979271511102910209Rat
1582203Gluco19Glucose level QTL 193.30.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)992491589100929786Rat


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

endocrine system hemolymphoid system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 7
Low 1 1 1 1 1
Below cutoff 1 2 1 1 7 1 3 1

Sequence


RefSeq Acc Id: ENSRNOT00000026099   ⟹   ENSRNOP00000026099
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl997,271,334 - 97,347,336 (-)Ensembl
Rnor_6.0 Ensembl9104,392,850 - 104,467,973 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000071358   ⟹   ENSRNOP00000066535
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl9105,246,120 - 105,282,292 (-)Ensembl
RefSeq Acc Id: NR_185094
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89104,713,945 - 104,794,649 (-)NCBI
mRatBN7.2997,266,655 - 97,347,336 (-)NCBI
Protein Sequences
GenBank Protein AAK63015 (Get FASTA)   NCBI Sequence Viewer  
  EDL91883 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000026099.5
RefSeq Acc Id: ENSRNOP00000026099   ⟸   ENSRNOT00000026099
RefSeq Acc Id: ENSRNOP00000066535   ⟸   ENSRNOT00000071358
Protein Domains
Kazal-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0RAI5-F1-model_v2 AlphaFold M0RAI5 1-231 view protein structure
AF-Q924H6-F1-model_v2 AlphaFold Q924H6 1-748 view protein structure

Transcriptome

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

Promoters
RGD ID:13696889
Promoter ID:EPDNEW_R7413
Type:initiation region
Name:Slco6b1_1
Description:solute carrier organic anion transporter family member 6B1
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_6.09104,467,936 - 104,467,996EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620278 AgrOrtholog
BioCyc Gene G2FUF-26590 BioCyc
Ensembl Genes ENSRNOG00000019252 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000048837 Ensembl
Ensembl Transcript ENSRNOT00000026099 ENTREZGENE
  ENSRNOT00000026099.7 UniProtKB/TrEMBL
Gene3D-CATH 1.20.1250.20 UniProtKB/TrEMBL
InterPro Kazal_dom UniProtKB/TrEMBL
  Kazal_dom_sf UniProtKB/TrEMBL
  MFS_trans_sf UniProtKB/TrEMBL
  OA_transporter UniProtKB/TrEMBL
KEGG Report rno:170925 UniProtKB/TrEMBL
NCBI Gene 170925 ENTREZGENE
PANTHER PTHR11388 UniProtKB/TrEMBL
  SOLUTE CARRIER ORGANIC ANION TRANSPORTER FAMILY MEMBER 6A1 UniProtKB/TrEMBL
Pfam Kazal_2 UniProtKB/TrEMBL
  OATP UniProtKB/TrEMBL
PhenoGen Slco6b1 PhenoGen
PROSITE KAZAL_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000019252 RatGTEx
  ENSRNOG00000048837 RatGTEx
RNAcentral URS00026A1F05 RNACentral
Superfamily-SCOP MFS_gen_substrate_transporter UniProtKB/TrEMBL
  SSF100895 UniProtKB/TrEMBL
UniProt A0A9K3Y8H0_RAT UniProtKB/TrEMBL
  Q924H6_RAT UniProtKB/TrEMBL
UniProt Secondary F1MA40 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Slco6b1  solute carrier organic anion transporter family member 6B1  LOC102554121  solute carrier organic anion transporter family member 6A1-like  Data merged from RGD:7539575 737654 PROVISIONAL
2016-03-16 Slco6b1  solute carrier organic anion transporter family member 6B1  Slco6b1  solute carrier organic anion transporter family, member 6b1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-12-17 LOC102554121  solute carrier organic anion transporter family member 6A1-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-07-08 Slco6b1  solute carrier organic anion transporter family, member 6b1  Tst1  testis-specific transporter TST1  Symbol and Name updated 1299863 APPROVED
2002-08-07 Tst1  testis-specific transporter TST1      Symbol and Name status set to provisional 70820 PROVISIONAL