Slc2a9 (solute carrier family 2 member 9) - Rat Genome Database

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Gene: Slc2a9 (solute carrier family 2 member 9) Rattus norvegicus
Analyze
Symbol: Slc2a9
Name: solute carrier family 2 member 9
RGD ID: 1597012
Description: Predicted to have glucose transmembrane transporter activity and urate transmembrane transporter activity. Predicted to be involved in glucose transmembrane transport; urate metabolic process; and urate transport. Predicted to localize to several cellular components, including apical plasma membrane; basolateral plasma membrane; and nuclear envelope. Orthologous to human SLC2A9 (solute carrier family 2 member 9); INTERACTS WITH (+)-schisandrin B; 2,2',5,5'-tetrachlorobiphenyl; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC501925; similar to solute carrier family 2, member 9 isoform a; solute carrier family 2 (facilitated glucose transporter), member 9; solute carrier family 2, facilitated glucose transporter member 9
RGD Orthologs
Human
Mouse
Chinchilla
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
mRatBN7.21472,328,334 - 72,461,981 (+)NCBI
Rnor_6.0 Ensembl1477,067,503 - 77,192,702 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01477,067,537 - 77,192,702 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01477,050,030 - 77,174,290 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41477,624,411 - 77,740,695 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1471,300,173 - 71,413,222 (+)NCBICelera
Cytogenetic Map14q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

Additional References at PubMed
PMID:14657010   PMID:15632090   PMID:18327257   PMID:18834626   PMID:19503597   PMID:19587147   PMID:20053405   PMID:25100214   PMID:28083649  


Genomics

Comparative Map Data
Slc2a9
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21472,328,334 - 72,461,981 (+)NCBI
Rnor_6.0 Ensembl1477,067,503 - 77,192,702 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01477,067,537 - 77,192,702 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01477,050,030 - 77,174,290 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41477,624,411 - 77,740,695 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1471,300,173 - 71,413,222 (+)NCBICelera
Cytogenetic Map14q21NCBI
SLC2A9
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl49,771,153 - 10,054,936 (-)EnsemblGRCh38hg38GRCh38
GRCh3849,771,125 - 10,040,270 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh3749,827,848 - 10,041,894 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3649,436,946 - 9,650,970 (-)NCBINCBI36hg18NCBI36
Build 3449,504,117 - 9,699,383NCBI
Celera410,310,714 - 10,524,222 (-)NCBI
Cytogenetic Map4p16.1NCBI
HuRef49,162,269 - 9,375,568 (-)NCBIHuRef
CHM1_149,825,801 - 10,040,024 (-)NCBICHM1_1
Slc2a9
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39538,506,616 - 38,660,488 (-)NCBIGRCm39mm39
GRCm39 Ensembl538,506,616 - 38,660,486 (-)Ensembl
GRCm38538,349,272 - 38,503,147 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl538,349,273 - 38,503,143 (-)EnsemblGRCm38mm10GRCm38
MGSCv37538,740,512 - 38,893,391 (-)NCBIGRCm37mm9NCBIm37
MGSCv36538,637,555 - 38,790,401 (-)NCBImm8
Celera535,802,909 - 35,950,476 (-)NCBICelera
Cytogenetic Map5B3NCBI
Slc2a9
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555145,479,585 - 5,625,223 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555145,479,585 - 5,625,328 (-)NCBIChiLan1.0ChiLan1.0
SLC2A9
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.149,606,182 - 9,771,104 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl49,553,491 - 9,746,981 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v044,232,737 - 4,442,387 (-)NCBIMhudiblu_PPA_v0panPan3
SLC2A9
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1369,394,304 - 69,588,462 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl369,394,152 - 69,595,802 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha371,951,679 - 72,140,512 (+)NCBI
ROS_Cfam_1.0370,150,039 - 70,345,339 (+)NCBI
UMICH_Zoey_3.1369,429,052 - 69,619,481 (+)NCBI
UNSW_CanFamBas_1.0369,593,868 - 69,784,921 (+)NCBI
UU_Cfam_GSD_1.0369,977,002 - 70,166,047 (+)NCBI
Slc2a9
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528562,998,205 - 63,134,783 (+)NCBI
SpeTri2.0NW_00493647716,700,915 - 16,836,424 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC2A9
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl86,210,477 - 6,367,990 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.186,211,143 - 6,367,530 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
SLC2A9
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12740,030,051 - 40,224,069 (+)NCBI
Slc2a9
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475521,165,374 - 21,328,843 (+)NCBI


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1412680424106641756Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143259392686191589Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)144031561085315610Rat
2313084Bss83Bone structure and strength QTL 832.90.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)144031561085315610Rat
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)144031561085315610Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)144031561085315610Rat
70214Niddm28Non-insulin dependent diabetes mellitus QTL 284.06blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)144163756980841518Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1442442731108833671Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1443910761105074364Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1451818462105074364Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1460980905105980905Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1460980905105980905Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)146187332388870994Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1461993178106993178Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1463548095108548095Rat
70153Bp59Blood pressure QTL 593.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)147339146788870994Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:218
Count of miRNA genes:145
Interacting mature miRNAs:178
Transcripts:ENSRNOT00000042200
Prediction methods:Miranda, 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 1 27 27 2 27 1 2
Low 2 41 30 14 17 14 8 11 21 34 40 9 8
Below cutoff 2 53 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000042200   ⟹   ENSRNOP00000045713
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1477,079,402 - 77,192,702 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000085275   ⟹   ENSRNOP00000069713
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1477,067,503 - 77,192,701 (+)Ensembl
RefSeq Acc Id: NM_001191551   ⟹   NP_001178480
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21472,348,646 - 72,461,981 (+)NCBI
Rnor_6.01477,079,402 - 77,192,702 (+)NCBI
Rnor_5.01477,050,030 - 77,174,290 (+)NCBI
Celera1471,300,173 - 71,413,222 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006251100   ⟹   XP_006251162
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21472,336,792 - 72,461,981 (+)NCBI
Rnor_6.01477,067,537 - 77,192,351 (+)NCBI
Rnor_5.01477,050,030 - 77,174,290 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006251101   ⟹   XP_006251163
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21472,336,889 - 72,461,981 (+)NCBI
Rnor_6.01477,067,650 - 77,192,351 (+)NCBI
Rnor_5.01477,050,030 - 77,174,290 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006251102   ⟹   XP_006251164
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21472,348,504 - 72,461,981 (+)NCBI
Rnor_6.01477,079,229 - 77,192,351 (+)NCBI
Rnor_5.01477,050,030 - 77,174,290 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039092336   ⟹   XP_038948264
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21472,328,334 - 72,461,981 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001178480   ⟸   NM_001191551
- UniProtKB: D4A237 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251162   ⟸   XM_006251100
- Peptide Label: isoform X2
- UniProtKB: A0A0G2JW25 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251163   ⟸   XM_006251101
- Peptide Label: isoform X2
- UniProtKB: A0A0G2JW25 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251164   ⟸   XM_006251102
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSRNOP00000069713   ⟸   ENSRNOT00000085275
RefSeq Acc Id: ENSRNOP00000045713   ⟸   ENSRNOT00000042200
RefSeq Acc Id: XP_038948264   ⟸   XM_039092336
- Peptide Label: isoform X1
Protein Domains
MFS

Transcriptome

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

Promoters
RGD ID:13699364
Promoter ID:EPDNEW_R9889
Type:multiple initiation site
Name:Slc2a9_1
Description:solute carrier family 2 member 9
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R9890  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01477,067,606 - 77,067,666EPDNEW
RGD ID:13699365
Promoter ID:EPDNEW_R9890
Type:multiple initiation site
Name:Slc2a9_2
Description:solute carrier family 2 member 9
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R9889  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01477,079,331 - 77,079,391EPDNEW

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)
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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
SHR/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
SHRSP/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
SR/JrHsd (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: 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
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
14 77114799 77114800 C G snv ACI/EurMcwi (MCW), KFRS3B/Kyo (KyushuU), SBN/Ygl (MCW), SR/JrHsd (MCW), SS/JrHsdMcwi (MCW), LH/MavRrrc (KNAW), LL/MavRrrc (KNAW), LN/MavRrrc (KNAW), MR/N (KNAW), SR/JrHsd (KNAW), SS/Jr (KNAW), SS/JrHsdMcwi (KNAW), WAG/Rij (KNAW), ACI/N (KNAW), ACI/EurMcwi (KNAW), SBN/Ygl (KNAW), F344/NRrrc (Illumina) (KNAW), BUF/N (KNAW), DA/BklArbNsi (KNAW), F344/NRrrc (SOLiD) (KNAW), F344/NCrl (KNAW), F344/NHsd (KNAW), GK/Ox (KNAW), LE/Stm (Illumina) (KNAW), LE/Stm (SOLiD) (KNAW), M520/N (KNAW), MNS/Gib (KNAW), WN/N (KNAW), NIG-III/Hok (KyushuU), F344/DuCrlCrlj (KyushuU), LE/Stm (KyushuU), HTX/Kyo (KyushuU), RCS/Kyo (KyushuU), F344/Stm (KyushuU), HWY/Slc (KyushuU), F344/Jcl (KyushuU), GH/OmrMcwi (MCW)
14 77172318 77172319 T C snv ACI/EurMcwi (MCW), GH/OmrMcwi (MCW), SBN/Ygl (MCW), SR/JrHsd (MCW), SS/JrHsdMcwi (MCW), LH/MavRrrc (KNAW), LL/MavRrrc (KNAW), LN/MavRrrc (KNAW), MR/N (KNAW), SR/JrHsd (KNAW), SS/Jr (KNAW), SS/JrHsdMcwi (KNAW), WAG/Rij (KNAW), ACI/N (KNAW), ACI/EurMcwi (KNAW), SBN/Ygl (KNAW), F344/NRrrc (Illumina) (KNAW), BUF/N (KNAW), DA/BklArbNsi (KNAW), F344/NRrrc (SOLiD) (KNAW), F344/NCrl (KNAW), F344/NHsd (KNAW), GK/Ox (KNAW), LE/Stm (Illumina) (KNAW), LE/Stm (SOLiD) (KNAW), M520/N (KNAW), MNS/Gib (KNAW), WN/N (KNAW), SDLEF7/Barth (UDEL), NIG-III/Hok (KyushuU), F344/DuCrlCrlj (KyushuU), LE/Stm (KyushuU), HTX/Kyo (KyushuU), F344/NSlc (KyushuU), RCS/Kyo (KyushuU), F344/Stm (KyushuU), HWY/Slc (KyushuU), F344/Jcl (KyushuU), KFRS3B/Kyo (KyushuU), ZF (KyushuU), ZFDM (KyushuU)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
14 77132574 77132575 C G snv WN/N (MCW), ACI/N (MCW), GH/OmrMcwi (MCW), SS/Jr (RGD), SS/JrHsdMcwi (MCW), SR/JrHsd (RGD), SBN/Ygl (RGD), MR/N (MCW), ACI/EurMcwi (MCW), MNS/Gib (RGD), M520/N (MCW), LL/MavRrrc (RGD), LN/MavRrrc (RGD), F344/NRrrc (MCW), SR/JrHsd (MCW), LH/MavRrrc (RGD), SBN/Ygl (MCW), LE/Stm (RGD), Buf/N (MCW), GK/Ox (RGD), F344/NCrl (RGD), WAG/Rij (RGD), ACI/EurMcwi (RGD), SS/JrHsdMcwi (RGD)
14 77190730 77190731 T C snv WAG/Rij (RGD), SS/Jr (RGD), SR/JrHsd (RGD), SBN/Ygl (RGD), MNS/Gib (RGD), LL/MavRrrc (RGD), LN/MavRrrc (RGD), LH/MavRrrc (RGD), LE/Stm (RGD), GK/Ox (RGD), F344/NCrl (RGD), ACI/EurMcwi (RGD), WN/N (MCW), MR/N (MCW), M520/N (MCW), F344/NRrrc (MCW), Buf/N (MCW), ACI/N (MCW), SS/JrHsdMcwi (MCW), SR/JrHsd (MCW), SBN/Ygl (MCW), GH/OmrMcwi (MCW), ACI/EurMcwi (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1597012 AgrOrtholog
Ensembl Genes ENSRNOG00000005302 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000045713 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000069713 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000042200 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000085275 UniProtKB/TrEMBL
InterPro Major_facilitator_SF UniProtKB/TrEMBL
  MFS_trans_sf UniProtKB/TrEMBL
  Sub_transporter UniProtKB/TrEMBL
  Sugar/inositol_transpt UniProtKB/TrEMBL
  Sugar_transporter_CS UniProtKB/TrEMBL
KEGG Report rno:501925 UniProtKB/TrEMBL
NCBI Gene 501925 ENTREZGENE
Pfam Sugar_tr UniProtKB/TrEMBL
PhenoGen Slc2a9 PhenoGen
PRINTS SUGRTRNSPORT UniProtKB/TrEMBL
PROSITE MFS UniProtKB/TrEMBL
  SUGAR_TRANSPORT_1 UniProtKB/TrEMBL
  SUGAR_TRANSPORT_2 UniProtKB/TrEMBL
Superfamily-SCOP MFS_gen_substrate_transporter UniProtKB/TrEMBL
TIGRFAMs TIGR00879 UniProtKB/TrEMBL
UniProt A0A0G2JW25 ENTREZGENE, UniProtKB/TrEMBL
  D4A237 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-24 Slc2a9  solute carrier family 2 member 9  Slc2a9  solute carrier family 2 (facilitated glucose transporter), member 9  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-05 Slc2a9  solute carrier family 2 (facilitated glucose transporter), member 9  LOC501925  similar to solute carrier family 2, member 9 isoform a  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC501925  similar to solute carrier family 2, member 9 isoform a      Symbol and Name status set to provisional 70820 PROVISIONAL