Slc3a1 (solute carrier family 3 member 1) - Rat Genome Database

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Gene: Slc3a1 (solute carrier family 3 member 1) Rattus norvegicus
Analyze
Symbol: Slc3a1
Name: solute carrier family 3 member 1
RGD ID: 3709
Description: Predicted to enable protein heterodimerization activity. Involved in amino acid transport. Located in vacuolar membrane. Human ortholog(s) of this gene implicated in cystinuria. Orthologous to human SLC3A1 (solute carrier family 3 member 1); PARTICIPATES IN amiloride pharmacodynamics pathway; bendroflumethiazide pharmacodynamics pathway; bumetanide pharmacodynamics pathway; INTERACTS WITH 17alpha-ethynylestradiol; 2,2,2-tetramine; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: amino acid transporter heavy chain SLC3A1; b(0,+)-type amino acid transport protein; b(0,+)-type amino acid transporter-related heavy chain; D2; NAA-TR; NBAT; neutral and basic amino acid transport protein rBAT; rBAT; solute carrier family 3 (amino acid transporter heavy chain), member 1; solute carrier family 3, member 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8615,361,037 - 15,396,695 (-)NCBIGRCr8
mRatBN7.269,608,169 - 9,641,881 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl69,608,178 - 9,641,907 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx69,897,026 - 9,930,636 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0610,206,403 - 10,240,011 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.069,727,975 - 9,761,655 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.068,284,937 - 8,318,649 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl68,284,878 - 8,318,674 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.068,217,549 - 8,251,133 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.468,385,186 - 8,419,465 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.168,385,185 - 8,419,461 (+)NCBI
Celera69,332,403 - 9,366,072 (-)NCBICelera
Cytogenetic Map6q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model



  
Object Symbol
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Original Reference(s)
Slc3a1Ratcystinuria susceptibilityISOSLC3A1 (Homo sapiens)1600015DNA:missense mutationsRGD 
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Original Reference(s)
Slc3a1Ratautism spectrum disorder  ISOSLC3A1 (Homo sapiens)8554872ClinVar Annotator: match by term: Autism spectrum disordersClinVarPMID:12234283 more ...
Slc3a1Ratcongenital myasthenic syndrome 22  ISOSLC3A1 (Homo sapiens)8554872ClinVar Annotator: match by term: Myasthenic syndrome more ...ClinVarPMID:10737983 more ...
Slc3a1Ratcystinuria  ISOSLC3A1 (Homo sapiens)8554872ClinVar more ...ClinVarPMID:10464673 more ...
Slc3a1Ratgenetic disease  ISOSLC3A1 (Homo sapiens)8554872ClinVar Annotator: match by term: Inborn genetic diseasesClinVarPMID:10562926 more ...
Slc3a1Ratholoprosencephaly 2  ISOSLC3A1 (Homo sapiens)8554872ClinVar Annotator: match by term: Holoprosencephaly 2ClinVarPMID:18791198 more ...
Slc3a1Ratintellectual disability  ISOSLC3A1 (Homo sapiens)8554872ClinVar Annotator: match by term: Intellectual disabilityClinVarPMID:17576681 more ...
Slc3a1RatLynch syndrome  ISOSLC3A1 (Homo sapiens)8554872ClinVar Annotator: match by term: Hereditary nonpolyposis colorectal neoplasmsClinVarPMID:28492532
Slc3a1Ratnephrocalcinosis  ISOSLC3A1 (Homo sapiens)8554872ClinVar Annotator: match by term: NephrocalcinosisClinVarPMID:18947684 more ...
Slc3a1Ratprimary ovarian insufficiency  ISOSLC3A1 (Homo sapiens)8554872ClinVar Annotator: match by term: Premature ovarian insufficiencyClinVarPMID:25741868
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Slc3a1Ratcystinuria  ISOSLC3A1 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTD 
Slc3a1Rathypotonia-cystinuria syndrome  ISOSLC3A1 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:26247364
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Original Reference(s)
Slc3a1Ratcystinuria  ISSSlc3a1 (Mus musculus)13592920OMIM:220100MouseDO 
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Slc3a1Ratcystinuria  ISOSLC3A1 (Homo sapiens)7240710 OMIM 

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Slc3a1Rat1,1-dichloroethene decreases expressionISOSlc3a1 (Mus musculus)6480464vinylidene chloride results in decreased expression of SLC3A1 mRNACTDPMID:26682919
Slc3a1Rat1,2-dichloroethane increases expressionISOSlc3a1 (Mus musculus)6480464ethylene dichloride results in increased expression of SLC3A1 mRNACTDPMID:28189721 and PMID:28960355
Slc3a1Rat1,2-dimethylhydrazine decreases expressionISOSlc3a1 (Mus musculus)64804641 and 2-Dimethylhydrazine results in decreased expression of SLC3A1 mRNACTDPMID:22206623
Slc3a1Rat17alpha-ethynylestradiol decreases expressionISOSLC3A1 (Homo sapiens)6480464Ethinyl Estradiol results in decreased expression of SLC3A1 mRNACTDPMID:18936297
Slc3a1Rat17alpha-ethynylestradiol affects expressionEXP 6480464Ethinyl Estradiol affects the expression of SLC3A1 mRNACTDPMID:20170705 and PMID:26865667
Slc3a1Rat17alpha-ethynylestradiol affects expressionISOSLC3A1 (Homo sapiens)6480464Ethinyl Estradiol affects the expression of SLC3A1 mRNACTDPMID:20170705 and PMID:26865667
Slc3a1Rat17beta-estradiol multiple interactionsISOSLC3A1 (Homo sapiens)6480464[Estradiol co-treated with Progesterone] results in increased expression of SLC3A1 mRNACTDPMID:20660070
Slc3a1Rat17beta-estradiol affects expressionISOSlc3a1 (Mus musculus)6480464Estradiol affects the expression of SLC3A1 mRNACTDPMID:39298647
Slc3a1Rat17beta-estradiol decreases expressionISOSLC3A1 (Homo sapiens)6480464Estradiol results in decreased expression of SLC3A1 mRNACTDPMID:18692832
Slc3a1Rat2,2,2-tetramine multiple interactionsEXP 6480464Trientine inhibits the reaction [Streptozocin results in decreased expression of SLC3A1 protein]CTDPMID:19634143
Slc3a1Rat2,3,7,8-tetrachlorodibenzodioxine decreases expressionISOSlc3a1 (Mus musculus)6480464Tetrachlorodibenzodioxin results in decreased expression of SLC3A1 mRNACTDPMID:19770486
Slc3a1Rat2,3,7,8-tetrachlorodibenzodioxine decreases expressionEXP 6480464Tetrachlorodibenzodioxin results in decreased expression of SLC3A1 mRNACTDPMID:32109520 and PMID:33387578
Slc3a1Rat2,3,7,8-tetrachlorodibenzodioxine affects expressionISOSlc3a1 (Mus musculus)6480464Tetrachlorodibenzodioxin affects the expression of SLC3A1 mRNACTDPMID:28922406
Slc3a1Rat2,3,7,8-tetrachlorodibenzodioxine increases expressionISOSLC3A1 (Homo sapiens)6480464Tetrachlorodibenzodioxin results in increased expression of SLC3A1 mRNACTDPMID:20106945 and PMID:21632981
Slc3a1Rat2,3,7,8-tetrachlorodibenzodioxine affects expressionISOSLC3A1 (Homo sapiens)6480464Tetrachlorodibenzodioxin affects the expression of SLC3A1 mRNACTDPMID:22298810
Slc3a1Rat3,4-methylenedioxymethamphetamine increases expressionISOSlc3a1 (Mus musculus)6480464N-Methyl-3 and 4-methylenedioxyamphetamine results in increased expression of SLC3A1 mRNACTDPMID:20188158
Slc3a1Rat4,4'-sulfonyldiphenol decreases expressionISOSlc3a1 (Mus musculus)6480464bisphenol S results in decreased expression of SLC3A1 mRNACTDPMID:39298647
Slc3a1Rat6-propyl-2-thiouracil decreases expressionEXP 6480464Propylthiouracil results in decreased expression of SLC3A1 mRNACTDPMID:24780913
Slc3a1Rataflatoxin B1 decreases expressionISOSLC3A1 (Homo sapiens)6480464Aflatoxin B1 results in decreased expression of SLC3A1 mRNACTDPMID:27153756
Slc3a1Ratamitrole decreases expressionEXP 6480464Amitrole results in decreased expression of SLC3A1 mRNACTDPMID:38685447

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Biological Process
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Cellular Component
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Original Reference(s)
Slc3a1Ratapical plasma membrane is_active_inIEAUniProtKB:Q91WV7 and ensembl:ENSMUSP000000249441600115GO_REF:0000107EnsemblGO_REF:0000107
Slc3a1Ratapical plasma membrane located_inIEAUniProtKB-SubCell:SL-00151600115GO_REF:0000044UniProtGO_REF:0000044
Slc3a1Ratapical plasma membrane is_active_inISOSlc3a1 (Mus musculus)1624291UniProtKB:Q91WN3 and PMID:26739563RGDPMID:26739563
Slc3a1Ratbrush border membrane located_inISOSLC3A1 (Homo sapiens)1624291 PMID:12167606RGDPMID:12167606
Slc3a1Ratbrush border membrane located_inIEAUniProtKB:Q07837 and ensembl:ENSP000002606491600115GO_REF:0000107EnsemblGO_REF:0000107
Slc3a1Ratbrush border membrane located_inISOSlc3a1 (Mus musculus)1624291 PMID:12167606RGDPMID:12167606
Slc3a1Ratbrush border membrane located_inIEAUniProtKB:Q91WV7 and ensembl:ENSMUSP000000249441600115GO_REF:0000107EnsemblGO_REF:0000107
Slc3a1Ratmembrane located_inIEAUniProtKB-KW:KW-04721600115GO_REF:0000043UniProtGO_REF:0000043
Slc3a1Ratplasma membrane located_inIEAUniProtKB-SubCell:SL-00391600115GO_REF:0000044UniProtGO_REF:0000044
Slc3a1Ratplasma membrane located_inIEAUniProtKB-KW:KW-10031600115GO_REF:0000043UniProtGO_REF:0000043
Slc3a1Ratvacuolar membrane  IDA 1600019 RGD 
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Molecular Function

  

Imported Annotations - SMPDB

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Original Reference(s)
Slc3a1Ratamiloride pharmacodynamics pathway  ISOSLC3A1 (Homo sapiens)10402751 SMPDBSMP:00133
Slc3a1Ratbendroflumethiazide pharmacodynamics pathway  ISOSLC3A1 (Homo sapiens)10402751 SMPDBSMP:00090
Slc3a1Ratbumetanide pharmacodynamics pathway  ISOSLC3A1 (Homo sapiens)10402751 SMPDBSMP:00088
Slc3a1Ratchlorothiazide pharmacodynamics pathway  ISOSLC3A1 (Homo sapiens)10402751 SMPDBSMP:00078
Slc3a1Ratchlorthalidone pharmacodynamics pathway  ISOSLC3A1 (Homo sapiens)10402751 SMPDBSMP:00122
Slc3a1Ratcystinuria pathway  ISOSLC3A1 (Homo sapiens)10402751 SMPDBSMP:00723
Slc3a1Rateplerenone pharmacodynamics pathway  ISOSLC3A1 (Homo sapiens)10402751 SMPDBSMP:00135
Slc3a1Ratetacrynic acid pharmacodynamics pathway  ISOSLC3A1 (Homo sapiens)10402751 SMPDBSMP:00097
Slc3a1Ratfurosemide pharmacodynamics pathway  ISOSLC3A1 (Homo sapiens)10402751 SMPDBSMP:00115
Slc3a1RatHartnup disease pathway  ISOSLC3A1 (Homo sapiens)10402751 SMPDBSMP:00189
Slc3a1Rathydrochlorothiazide pharmacodynamics pathway  ISOSLC3A1 (Homo sapiens)10402751 SMPDBSMP:00100
Slc3a1Rathydroflumethiazide pharmacodynamics pathway  ISOSLC3A1 (Homo sapiens)10402751 SMPDBSMP:00108
Slc3a1Ratiminoglycinuria pathway  ISOSLC3A1 (Homo sapiens)10402751 SMPDBSMP:00193
Slc3a1Ratlysinuric protein intolerance pathway  ISOSLC3A1 (Homo sapiens)10402751 SMPDBSMP:00197
Slc3a1Ratlysinuric protein intolerance pathway  ISOSLC3A1 (Homo sapiens)10402751 SMPDBSMP:00585
Slc3a1Ratmetolazone pharmacodynamics pathway  ISOSLC3A1 (Homo sapiens)10402751 SMPDBSMP:00105
Slc3a1Ratspironolactone pharmacodynamics pathway  ISOSLC3A1 (Homo sapiens)10402751 SMPDBSMP:00134
Slc3a1Rattorasemide pharmacodynamics pathway  ISOSLC3A1 (Homo sapiens)10402751 SMPDBSMP:00118
Slc3a1Rattriamterene pharmacodynamics pathway  ISOSLC3A1 (Homo sapiens)10402751 SMPDBSMP:00132
Slc3a1Rattrichlormethiazide pharmacodynamics pathway  ISOSLC3A1 (Homo sapiens)10402751 SMPDBSMP:00121
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#
Reference Title
Reference Citation
1. Cystinuria caused by mutations in rBAT, a gene involved in the transport of cystine. Calonge MJ, etal., Nat Genet. 1994 Apr;6(4):420-5.
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. Membrane topology of the rat kidney neutral and basic amino acid transporter. Mosckovitz R, etal., FASEB J. 1994 Oct;8(13):1069-74.
5. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
6. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
7. Regional and subcellular distribution of a neutral and basic amino acid transporter in forebrain neurons containing nitric oxide synthase. Pickel VM, etal., J Comp Neurol. 1999 Feb 22;404(4):459-72.
8. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
9. GOA pipeline RGD automated data pipeline
10. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
11. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
12. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
13. Expression cloning of a Na(+)-independent neutral amino acid transporter from rat kidney. Tate SS, etal., Proc Natl Acad Sci U S A 1992 Jan 1;89(1):1-5.
14. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
15. Oligomeric structure of a renal cystine transporter: implications in cystinuria. Wang Y and Tate SS, FEBS Lett. 1995 Jul 17;368(2):389-92.
16. Cloning of a rat kidney cDNA that stimulates dibasic and neutral amino acid transport and has sequence similarity to glucosidases. Wells RG and Hediger MA, Proc Natl Acad Sci U S A 1992 Jun 15;89(12):5596-600.
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PMID:8052618   PMID:10506124   PMID:12167606   PMID:12865426   PMID:15489334   PMID:19056867   PMID:23376485  



Slc3a1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8615,361,037 - 15,396,695 (-)NCBIGRCr8
mRatBN7.269,608,169 - 9,641,881 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl69,608,178 - 9,641,907 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx69,897,026 - 9,930,636 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0610,206,403 - 10,240,011 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.069,727,975 - 9,761,655 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.068,284,937 - 8,318,649 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl68,284,878 - 8,318,674 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.068,217,549 - 8,251,133 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.468,385,186 - 8,419,465 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.168,385,185 - 8,419,461 (+)NCBI
Celera69,332,403 - 9,366,072 (-)NCBICelera
Cytogenetic Map6q12NCBI
SLC3A1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38244,275,480 - 44,322,437 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl244,275,458 - 44,321,494 (+)EnsemblGRCh38hg38GRCh38
GRCh37244,502,619 - 44,548,633 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36244,356,103 - 44,401,448 (+)NCBINCBI36Build 36hg18NCBI36
Build 34244,414,249 - 44,459,588NCBI
Celera244,341,552 - 44,386,916 (+)NCBICelera
Cytogenetic Map2p21NCBI
HuRef244,239,242 - 44,284,624 (+)NCBIHuRef
CHM1_1244,430,299 - 44,475,664 (+)NCBICHM1_1
T2T-CHM13v2.0244,280,847 - 44,327,754 (+)NCBIT2T-CHM13v2.0
Slc3a1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391785,335,775 - 85,371,669 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1785,335,804 - 85,371,664 (+)EnsemblGRCm39 Ensembl
GRCm381785,028,347 - 85,064,241 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1785,028,376 - 85,064,236 (+)EnsemblGRCm38mm10GRCm38
MGSCv371785,427,687 - 85,463,581 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361784,936,718 - 84,983,241 (+)NCBIMGSCv36mm8
Celera1789,390,574 - 89,425,929 (+)NCBICelera
Cytogenetic Map17E4NCBI
cM Map1755.17NCBI
Slc3a1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544111,381,441 - 11,418,025 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544111,381,390 - 11,418,193 (+)NCBIChiLan1.0ChiLan1.0
SLC3A1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21282,089,000 - 82,146,430 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A82,092,970 - 82,150,400 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A44,371,328 - 44,419,611 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A45,307,885 - 45,356,055 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A45,307,885 - 45,355,386 (+)Ensemblpanpan1.1panPan2
SLC3A1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11046,690,555 - 46,737,417 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1046,685,137 - 46,737,147 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1046,562,101 - 46,597,364 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01047,580,243 - 47,618,780 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1047,580,243 - 47,615,494 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11047,287,361 - 47,322,625 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01047,578,444 - 47,613,677 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01047,760,850 - 47,796,315 (+)NCBIUU_Cfam_GSD_1.0
Slc3a1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629236,243,175 - 36,276,008 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365087,672,223 - 7,703,961 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365087,672,274 - 7,703,962 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC3A1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl396,157,380 - 96,215,454 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1396,157,387 - 96,201,057 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.23102,312,692 - 102,371,561 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SLC3A1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11462,924,906 - 62,971,268 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1462,925,443 - 62,971,252 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604548,910,733 - 48,957,571 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Slc3a1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473825,768,573 - 25,802,716 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473825,762,064 - 25,802,407 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

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Variants in Slc3a1
166 total Variants

Predicted Target Of
Summary Value
Count of predictions:38
Count of miRNA genes:35
Interacting mature miRNAs:37
Transcripts:ENSRNOT00000009581
Prediction methods: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.


1 to 10 of 24 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
8552962Pigfal16Plasma insulin-like growth factor 1 level QTL 169.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)6141223769Rat
7411603Foco13Food consumption QTL 135.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6141223769Rat
1598843Cm63Cardiac mass QTL 632.6heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)6139036266Rat
738024Sach5Saccharine consumption QTL 53.90.00039consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)6143394190Rat
1549905Stresp10Stress response QTL 106.830.0066stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)6127574569Rat
7411542Bw127Body weight QTL 1275.50.001body mass (VT:0001259)body weight gain (CMO:0000420)6141223769Rat
8693699Alc37Alcohol consumption QTL 372.60.224drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)6796416721301982Rat
2293706Bmd20Bone mineral density QTL 204.30.0002femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)6507449719988050Rat
9589048Scfw3Subcutaneous fat weight QTL 34.570.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)6141223769Rat
1331743Uae28Urinary albumin excretion QTL 284.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)6134235784Rat

1 to 10 of 24 rows
RH132752  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.269,608,328 - 9,608,534 (-)MAPPERmRatBN7.2
Rnor_6.068,318,284 - 8,318,489NCBIRnor6.0
Rnor_5.068,250,768 - 8,250,973UniSTSRnor5.0
RGSC_v3.468,419,100 - 8,419,305UniSTSRGSC3.4
Celera69,332,563 - 9,332,768UniSTS
Cytogenetic Map6q12UniSTS
AW535278  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.269,610,813 - 9,610,967 (-)MAPPERmRatBN7.2
Rnor_6.068,315,851 - 8,316,004NCBIRnor6.0
Rnor_5.068,248,335 - 8,248,488UniSTSRnor5.0
RGSC_v3.468,416,667 - 8,416,820UniSTSRGSC3.4
Celera69,335,053 - 9,335,206UniSTS
Cytogenetic Map6q12UniSTS
RH139082  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.269,609,676 - 9,609,859 (-)MAPPERmRatBN7.2
Rnor_6.068,316,959 - 8,317,141NCBIRnor6.0
Rnor_5.068,249,443 - 8,249,625UniSTSRnor5.0
RGSC_v3.468,417,775 - 8,417,957UniSTSRGSC3.4
Celera69,333,911 - 9,334,093UniSTS
Cytogenetic Map6q12UniSTS




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
9 11 37 109 83 82 51 25 51 6 198 85 89 45 60 31



Ensembl Acc Id: ENSRNOT00000009581   ⟹   ENSRNOP00000009581
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl69,608,178 - 9,641,907 (-)Ensembl
Rnor_6.0 Ensembl68,284,878 - 8,318,674 (+)Ensembl
RefSeq Acc Id: NM_017216   ⟹   NP_058912
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8615,361,037 - 15,394,749 (-)NCBI
mRatBN7.269,608,169 - 9,641,881 (-)NCBI
Rnor_6.068,284,937 - 8,318,649 (+)NCBI
Rnor_5.068,217,549 - 8,251,133 (+)NCBI
RGSC_v3.468,385,186 - 8,419,465 (+)RGD
Celera69,332,403 - 9,366,072 (-)RGD
Sequence:
RefSeq Acc Id: XM_063261585   ⟹   XP_063117655
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8615,361,037 - 15,396,695 (-)NCBI
1 to 10 of 10 rows
Protein RefSeqs NP_058912 (Get FASTA)   NCBI Sequence Viewer  
  XP_063117655 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA20394 (Get FASTA)   NCBI Sequence Viewer  
  AAA41544 (Get FASTA)   NCBI Sequence Viewer  
  AAA73144 (Get FASTA)   NCBI Sequence Viewer  
  AAH78852 (Get FASTA)   NCBI Sequence Viewer  
  EDM02679 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000009581
  ENSRNOP00000009581.2
GenBank Protein Q64319 (Get FASTA)   NCBI Sequence Viewer  
1 to 10 of 10 rows
RefSeq Acc Id: NP_058912   ⟸   NM_017216
- UniProtKB: Q62672 (UniProtKB/Swiss-Prot),   Q64319 (UniProtKB/Swiss-Prot),   A6H9H4 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000009581   ⟸   ENSRNOT00000009581
RefSeq Acc Id: XP_063117655   ⟸   XM_063261585
- Peptide Label: isoform X1
Glycosyl hydrolase family 13 catalytic

Name Modeler Protein Id AA Range Protein Structure
AF-Q64319-F1-model_v2 AlphaFold Q64319 1-683 view protein structure


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

RGD ID:13694379
Promoter ID:EPDNEW_R4904
Type:initiation region
Name:Slc3a1_1
Description:solute carrier family 3 member 1
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_6.068,284,903 - 8,284,963EPDNEW


1 to 27 of 27 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-38653 BioCyc
Ensembl Genes ENSRNOG00000007006 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000009581 ENTREZGENE
  ENSRNOT00000009581.5 UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.40.1180 UniProtKB/Swiss-Prot
  Glycosidases UniProtKB/Swiss-Prot
  Oligo-1,6-glucosidase, Domain 2 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7110514 IMAGE-MGC_LOAD
InterPro Glyco_hydro_13_cat_dom UniProtKB/Swiss-Prot
  Glyco_hydro_b UniProtKB/Swiss-Prot
  Glycoside_hydrolase_SF UniProtKB/Swiss-Prot
  O16G_dom_2 UniProtKB/Swiss-Prot
KEGG Report rno:29484 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93505 IMAGE-MGC_LOAD
NCBI Gene 29484 ENTREZGENE
PANTHER ALPHA-AMYLASE FAMILY MEMBER UniProtKB/Swiss-Prot
  NEUTRAL AND BASIC AMINO ACID TRANSPORT PROTEIN RBAT UniProtKB/Swiss-Prot
Pfam Alpha-amylase UniProtKB/Swiss-Prot
PhenoGen Slc3a1 PhenoGen
RatGTEx ENSRNOG00000007006 RatGTEx
SMART Aamy UniProtKB/Swiss-Prot
Superfamily-SCOP SSF51445 UniProtKB/Swiss-Prot
TIGR TC207343
UniProt A6H9H4 ENTREZGENE, UniProtKB/TrEMBL
  Q62672 ENTREZGENE
  Q64319 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q62672 UniProtKB/Swiss-Prot
1 to 27 of 27 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-24 Slc3a1  solute carrier family 3 member 1  Slc3a1  solute carrier family 3 (amino acid transporter heavy chain), member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-03-16 Slc3a1  solute carrier family 3 (amino acid transporter heavy chain), member 1  Slc3a1  solute carrier family 3, member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2003-04-09 Slc3a1  solute carrier family 3, member 1    solute carrier family 3, member 1   Name updated 629478 APPROVED
2002-06-10 Slc3a1  solute carrier family 3, member 1       Name updated 70584 APPROVED

Note Type Note Reference
gene_domains appears to have a single transmembrane domain 70013
gene_expression mRNA expressed specifically in kidney and intestine 70013
gene_protein putative protein is of 78 kDa 70013