Slco5a1 (solute carrier organic anion transporter family, member 5A1) - Rat Genome Database

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Gene: Slco5a1 (solute carrier organic anion transporter family, member 5A1) Rattus norvegicus
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Symbol: Slco5a1
Name: solute carrier organic anion transporter family, member 5A1
RGD ID: 1307132
Description: Predicted to have sodium-independent organic anion transmembrane transporter activity. Predicted to be involved in sodium-independent organic anion transport. Predicted to localize to integral component of plasma membrane and intracellular membrane-bounded organelle. Orthologous to human SLCO5A1 (solute carrier organic anion transporter family member 5A1); INTERACTS WITH 17alpha-ethynylestradiol; 6-propyl-2-thiouracil; acetamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC312907; solute carrier organic anion transporter family member 5A1
RGD Orthologs
Human
Mouse
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.256,228,938 - 6,358,124 (+)NCBI
Rnor_6.0 Ensembl55,866,897 - 5,989,667 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.055,866,362 - 5,994,748 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0510,704,801 - 10,829,802 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.455,446,597 - 5,571,661 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.155,446,555 - 5,572,105 (+)NCBI
Celera55,806,993 - 5,929,188 (+)NCBICelera
Cytogenetic Map5q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:21278488  


Genomics

Comparative Map Data
Slco5a1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.256,228,938 - 6,358,124 (+)NCBI
Rnor_6.0 Ensembl55,866,897 - 5,989,667 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.055,866,362 - 5,994,748 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0510,704,801 - 10,829,802 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.455,446,597 - 5,571,661 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.155,446,555 - 5,572,105 (+)NCBI
Celera55,806,993 - 5,929,188 (+)NCBICelera
Cytogenetic Map5q11NCBI
SLCO5A1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl869,667,046 - 69,834,978 (-)EnsemblGRCh38hg38GRCh38
GRCh38869,667,046 - 69,835,064 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37870,579,281 - 70,747,213 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36870,747,129 - 70,909,762 (-)NCBINCBI36hg18NCBI36
Build 34870,747,128 - 70,909,762NCBI
Celera866,582,145 - 66,744,912 (-)NCBI
Cytogenetic Map8q13.3NCBI
HuRef866,078,661 - 66,241,442 (-)NCBIHuRef
CHM1_1870,639,975 - 70,802,700 (-)NCBICHM1_1
Slco5a1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39112,936,773 - 13,063,043 (-)NCBIGRCm39mm39
GRCm39 Ensembl112,936,773 - 13,062,874 (-)Ensembl
GRCm38112,866,549 - 12,992,796 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl112,866,549 - 12,992,650 (-)EnsemblGRCm38mm10GRCm38
MGSCv37112,856,630 - 12,981,216 (-)NCBIGRCm37mm9NCBIm37
MGSCv36112,863,809 - 12,976,349 (-)NCBImm8
Celera112,824,337 - 12,949,884 (-)NCBICelera
Cytogenetic Map1A3NCBI
SLCO5A1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1867,860,134 - 68,019,664 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl867,860,134 - 68,019,757 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0866,202,168 - 66,359,752 (-)NCBIMhudiblu_PPA_v0panPan3
SLCO5A1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12918,895,195 - 19,029,385 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2918,895,799 - 19,028,769 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2919,215,735 - 19,353,625 (-)NCBI
ROS_Cfam_1.02918,987,976 - 19,121,514 (-)NCBI
UMICH_Zoey_3.12919,027,513 - 19,165,580 (-)NCBI
UNSW_CanFamBas_1.02919,094,070 - 19,232,078 (-)NCBI
UU_Cfam_GSD_1.02919,374,658 - 19,513,660 (-)NCBI
Slco5a1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530360,129,379 - 60,264,043 (+)NCBI
SpeTri2.0NW_00493649614,518,855 - 14,654,496 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLCO5A1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl465,439,178 - 65,583,213 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1465,439,221 - 65,589,115 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2471,224,074 - 71,249,807 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SLCO5A1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1865,444,143 - 65,601,242 (-)NCBI
ChlSab1.1 Ensembl865,446,585 - 65,598,876 (-)Ensembl
Slco5a1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474421,341,670 - 21,477,408 (+)NCBI

Position Markers
D5Uwm57  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.055,889,494 - 5,889,637NCBIRnor6.0
Rnor_5.0510,725,737 - 10,725,880UniSTSRnor5.0
RGSC_v3.455,468,839 - 5,468,983RGDRGSC3.4
RGSC_v3.455,468,840 - 5,468,983UniSTSRGSC3.4
RGSC_v3.155,468,839 - 5,468,983RGD
Celera55,828,305 - 5,828,448UniSTS
Cytogenetic Map5q11UniSTS
AU027527  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.055,923,635 - 5,923,757NCBIRnor6.0
Rnor_5.0510,758,833 - 10,758,955UniSTSRnor5.0
RGSC_v3.455,505,230 - 5,505,352UniSTSRGSC3.4
Celera55,862,834 - 5,862,956UniSTS
Cytogenetic Map5q11UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331771Rf35Renal function QTL 354.36965kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)5189432042Rat
1331756Rf34Renal function QTL 344.16275kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)5193273395Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51136640934Rat
2312562Pur18Proteinuria QTL 182.60.001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)5152509833001026Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)5152509878720537Rat
8662454Vetf3Vascular elastic tissue fragility QTL 327.4artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)5166658771552720Rat
2313085Bss59Bone structure and strength QTL 592.90.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)5325132926252076Rat
1300117Hrtrt8Heart rate QTL 83.49heart pumping trait (VT:2000009)heart rate (CMO:0000002)5325132948722188Rat
61462Niddm10Non-insulin dependent diabetes mellitus QTL 103.90.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)5452573847978104Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:94
Count of miRNA genes:82
Interacting mature miRNAs:89
Transcripts:ENSRNOT00000011940
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
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.


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 8 8 29 1 8
Low 2 43 25 12 19 12 3 42 2 13 8
Below cutoff 14 11 11 3 19 24 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000011940   ⟹   ENSRNOP00000011940
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl55,866,897 - 5,989,667 (+)Ensembl
RefSeq Acc Id: NM_001107898   ⟹   NP_001101368
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.256,230,603 - 6,352,913 (+)NCBI
Rnor_6.055,868,558 - 5,989,537 (+)NCBI
Rnor_5.0510,704,801 - 10,829,802 (+)NCBI
RGSC_v3.455,446,597 - 5,571,661 (+)RGD
Celera55,806,993 - 5,929,188 (+)RGD
Sequence:
RefSeq Acc Id: XM_006237743   ⟹   XP_006237805
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.055,867,227 - 5,994,748 (+)NCBI
Rnor_5.0510,704,801 - 10,829,802 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008763495   ⟹   XP_008761717
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.256,228,940 - 6,358,124 (+)NCBI
Rnor_6.055,866,365 - 5,994,748 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017593319   ⟹   XP_017448808
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.055,867,137 - 5,994,748 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017593320   ⟹   XP_017448809
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.055,866,362 - 5,994,748 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039109744   ⟹   XP_038965672
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.256,229,236 - 6,358,124 (+)NCBI
RefSeq Acc Id: XM_039109745   ⟹   XP_038965673
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.256,228,938 - 6,358,124 (+)NCBI
RefSeq Acc Id: XM_039109746   ⟹   XP_038965674
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.256,280,415 - 6,358,124 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001101368   ⟸   NM_001107898
- Sequence:
RefSeq Acc Id: XP_006237805   ⟸   XM_006237743
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008761717   ⟸   XM_008763495
- Peptide Label: isoform X1
- UniProtKB: D3ZZM7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017448809   ⟸   XM_017593320
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017448808   ⟸   XM_017593319
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000011940   ⟸   ENSRNOT00000011940
RefSeq Acc Id: XP_038965673   ⟸   XM_039109745
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038965672   ⟸   XM_039109744
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038965674   ⟸   XM_039109746
- Peptide Label: isoform X3
Protein Domains
Kazal-like   MFS

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307132 AgrOrtholog
Ensembl Genes ENSRNOG00000008966 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000011940 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000011940 UniProtKB/TrEMBL
InterPro Kazal_dom_sf UniProtKB/TrEMBL
  Major_facilitator_SF UniProtKB/TrEMBL
  MFS_trans_sf UniProtKB/TrEMBL
  OA_transporter UniProtKB/TrEMBL
  Prot_inh_Kazal UniProtKB/TrEMBL
NCBI Gene 312907 ENTREZGENE
PANTHER OA_transporter UniProtKB/TrEMBL
Pfam Kazal_2 UniProtKB/TrEMBL
  OATP UniProtKB/TrEMBL
PhenoGen Slco5a1 PhenoGen
PROSITE KAZAL_2 UniProtKB/TrEMBL
  MFS UniProtKB/TrEMBL
Superfamily-SCOP MFS_gen_substrate_transporter UniProtKB/TrEMBL
  SSF100895 UniProtKB/TrEMBL
TIGRFAMs oat UniProtKB/TrEMBL
UniProt D3ZZM7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Slco5a1  solute carrier organic anion transporter family, member 5A1   Slco5a1_predicted  solute carrier organic anion transporter family, member 5A1 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Slco5a1_predicted  solute carrier organic anion transporter family, member 5A1 (predicted)      Symbol and Name status set to approved 70820 APPROVED