Slc19a1 (solute carrier family 19 member 1) - Rat Genome Database

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Gene: Slc19a1 (solute carrier family 19 member 1) Rattus norvegicus
Analyze
Symbol: Slc19a1
Name: solute carrier family 19 member 1
RGD ID: 3695
Description: Enables folate:anion antiporter activity; folic acid binding activity; and methotrexate transmembrane transporter activity. Involved in female pregnancy; folic acid transport; and methotrexate transport. Located in apical plasma membrane; basolateral plasma membrane; and brush border membrane. Biomarker of chronic kidney disease. Human ortholog(s) of this gene implicated in cleft lip; dextro-looped transposition of the great arteries; hematologic cancer; and malaria. Orthologous to human SLC19A1 (solute carrier family 19 member 1); PARTICIPATES IN folate cycle metabolic pathway; folate metabolic pathway; INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: folate transporter 1; methotrexate carrier 1; methotrexate carrier 2; methotrexate carrier 5; methotrexate carrier 6; MGC93506; MTX-1; MTX1; reduced folate carrier 1; reduced folate transporter; RFC-1; RFC1; solute carrier family 19 (folate transporter), member 1; solute carrier family 19 (sodium/hydrogen exchanger) member 1; solute carrier family 19 (sodium/hydrogen exchanger), member 1; solute carrier family 19, member 1
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
mRatBN7.22011,584,410 - 11,602,429 (-)NCBI
Rnor_6.0 Ensembl2012,334,676 - 12,352,377 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02012,334,675 - 12,354,517 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02014,497,058 - 14,515,221 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42011,984,283 - 12,001,865 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12011,984,510 - 12,001,518 (-)NCBI
Celera2013,083,139 - 13,100,721 (-)NCBICelera
Cytogenetic Map20p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(S)-nicotine  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
4,4'-diisothiocyano-trans-stilbene-2,2'-disulfonic acid  (ISO)
4-Acetamido-4'-isothiocyanostilbene-2,2'-disulphonic acid  (ISO)
4-amino-2,6-dinitrotoluene  (EXP)
5,6,7,8-tetrahydrofolic acid  (EXP)
5-aza-2'-deoxycytidine  (ISO)
5-formyltetrahydrofolic acid  (ISO)
5-methyltetrahydrofolic acid  (EXP,ISO)
acrylamide  (ISO)
aflatoxin B1  (ISO)
alendronic acid  (EXP)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
atenolol  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bromosulfophthalein  (EXP)
bumetanide  (EXP)
calciol  (ISO)
carbamazepine  (EXP,ISO)
carbon nanotube  (ISO)
chlorpromazine  (EXP)
cholate  (EXP)
choline  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
clofibrate  (ISO)
clotrimazole  (EXP)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
cyclosporin A  (ISO)
diazinon  (ISO)
dibenzo[a,l]pyrene  (ISO)
diclofenac  (ISO)
dihydrofolic acid  (EXP)
dioxygen  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
ethanol  (EXP,ISO)
ethyl methanesulfonate  (ISO)
fipronil  (EXP)
flavonoids  (EXP)
folic acid  (EXP,ISO)
formaldehyde  (ISO)
furan  (EXP)
genistein  (ISO)
hydrogen peroxide  (ISO)
ICI D1694  (ISO)
indometacin  (ISO)
irinotecan  (ISO)
L-methionine  (ISO)
Lasiocarpine  (ISO)
lipopolysaccharide  (ISO)
methotrexate  (EXP,ISO)
methyl methanesulfonate  (ISO)
methylseleninic acid  (ISO)
monocrotaline  (ISO)
nicotine  (ISO)
okadaic acid  (EXP)
paracetamol  (ISO)
pemetrexed  (ISO)
phenobarbital  (EXP)
phorbol 13-acetate 12-myristate  (EXP)
potassium chromate  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
raloxifene  (EXP)
S-adenosyl-L-homocysteine  (ISO)
S-adenosyl-L-methioninate  (ISO)
S-adenosyl-L-methionine  (ISO)
selenium atom  (ISO)
taurocholic acid  (EXP)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
trimetrexate  (ISO)
troglitazone  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vitamin E  (ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Blom HJ and Smulders Y, J Inherit Metab Dis. 2011 Feb;34(1):75-81. doi: 10.1007/s10545-010-9177-4. Epub 2010 Sep 4.
2. Bukhari FJ, etal., Nephrol Dial Transplant. 2011 Jul;26(7):2137-44. doi: 10.1093/ndt/gfq675. Epub 2010 Dec 13.
3. Chiusolo P, etal., Cancer Chemother Pharmacol. 2012 Mar;69(3):691-6. doi: 10.1007/s00280-011-1751-4. Epub 2011 Oct 9.
4. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
5. GOA data from the GO Consortium
6. Gong D, etal., Clin Chem Lab Med. 2012 Feb 4;50(8):1455-61. doi: 10.1515/cclm-2011-0759.
7. Halwachs S, etal., Mol Pharmacol. 2011 Oct;80(4):621-9. doi: 10.1124/mol.111.072421. Epub 2011 Jul 7.
8. Hamid A, etal., IUBMB Life. 2009 Mar;61(3):236-43. doi: 10.1002/iub.153.
9. Hinken M, etal., Eur J Histochem. 2011 Jan 27;55(1):e3. doi: 10.4081/ejh.2011.e3.
10. Honscha W, etal., Hepatology. 2000 Jun;31(6):1296-304. doi: 10.1053/jhep.2000.7478.
11. Hosoya K, etal., Drug Metab Pharmacokinet. 2008;23(4):285-92. doi: 10.2133/dmpk.23.285.
12. Kneuer C, etal., Am J Physiol Renal Physiol 2004 Mar;286(3):F564-71. Epub 2003 Nov 11.
13. Kneuer C, etal., Cell Tissue Res. 2005 Jun;320(3):517-24. Epub 2005 Apr 22.
14. MGD data from the GO Consortium
15. Mirgal D, etal., Trans R Soc Trop Med Hyg. 2016 May;110(5):294-8. doi: 10.1093/trstmh/trw026.
16. NCBI rat LocusLink and RefSeq merged data July 26, 2002
17. Rajgopal A, etal., Am J Physiol Cell Physiol 2001 Nov;281(5):C1579-86.
18. RGD automated data pipeline
19. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
20. RGD automated import pipeline for gene-chemical interactions
21. Vieira AR, etal., Braz J Med Biol Res. 2008 Aug;41(8):689-93.
22. Wani NA, etal., Indian J Med Res. 2012 Nov;136(5):758-65.
23. Watkins D and Rosenblatt DS, J Inherit Metab Dis. 2012 Jul;35(4):665-70. doi: 10.1007/s10545-011-9418-1. Epub 2011 Nov 23.
24. Yasuda S, etal., Biosci Biotechnol Biochem. 2008 Sep;72(9):2277-84. Epub 2008 Sep 7.
Additional References at PubMed
PMID:9111015   PMID:9748272   PMID:10787414   PMID:12477932   PMID:14609557   PMID:15385270   PMID:16040340   PMID:16495369   PMID:16753822   PMID:21069807   PMID:21861943   PMID:22163044  
PMID:22554803   PMID:26990146   PMID:28885847   PMID:31126740   PMID:31511694  


Genomics

Comparative Map Data
Slc19a1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22011,584,410 - 11,602,429 (-)NCBI
Rnor_6.0 Ensembl2012,334,676 - 12,352,377 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02012,334,675 - 12,354,517 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02014,497,058 - 14,515,221 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42011,984,283 - 12,001,865 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12011,984,510 - 12,001,518 (-)NCBI
Celera2013,083,139 - 13,100,721 (-)NCBICelera
Cytogenetic Map20p12NCBI
SLC19A1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2145,493,572 - 45,573,365 (-)EnsemblGRCh38hg38GRCh38
GRCh382145,502,517 - 45,563,140 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372146,932,461 - 46,982,939 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362145,759,057 - 45,786,779 (-)NCBINCBI36hg18NCBI36
Build 342145,759,056 - 45,786,779NCBI
Celera2132,045,498 - 32,073,224 (-)NCBI
Cytogenetic Map21q22.3NCBI
HuRef2132,311,090 - 32,338,803 (-)NCBIHuRef
CHM1_12146,495,459 - 46,523,222 (-)NCBICHM1_1
Slc19a1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391076,868,103 - 76,886,266 (+)NCBIGRCm39mm39
GRCm39 Ensembl1076,868,075 - 76,896,836 (+)Ensembl
GRCm381077,032,269 - 77,050,432 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1077,032,241 - 77,061,002 (+)EnsemblGRCm38mm10GRCm38
MGSCv371076,496,004 - 76,513,171 (+)NCBIGRCm37mm9NCBIm37
MGSCv361076,476,975 - 76,494,142 (+)NCBImm8
Celera1078,077,259 - 78,094,426 (+)NCBICelera
Cytogenetic Map10C1NCBI
cM Map1039.72NCBI
Slc19a1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540742,132,165 - 42,141,992 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540742,132,216 - 42,154,252 (-)NCBIChiLan1.0ChiLan1.0
SLC19A1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12145,108,537 - 45,155,049 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2145,090,595 - 45,134,752 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02131,836,774 - 31,883,829 (-)NCBIMhudiblu_PPA_v0panPan3
SLC19A1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13138,958,332 - 38,971,091 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3138,967,013 - 38,971,094 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3138,186,973 - 38,207,074 (-)NCBI
ROS_Cfam_1.03138,595,425 - 38,615,689 (-)NCBI
UMICH_Zoey_3.13138,459,144 - 38,479,394 (-)NCBI
UNSW_CanFamBas_1.03138,418,853 - 38,439,175 (-)NCBI
UU_Cfam_GSD_1.03138,937,728 - 38,958,024 (-)NCBI
Slc19a1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497138,283,370 - 38,301,406 (-)NCBI
SpeTri2.0NW_004936778823,376 - 846,843 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC19A1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13207,986,098 - 208,007,675 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113207,986,094 - 208,007,855 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213218,089,574 - 218,114,847 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SLC19A1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1289,188,171 - 89,232,081 (-)NCBI
ChlSab1.1 Ensembl289,188,733 - 89,209,281 (-)Ensembl
Vero_WHO_p1.0NW_02366605417,449,163 - 17,496,448 (-)NCBI
Slc19a1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474530,793,114 - 30,811,944 (-)NCBI

Position Markers
U32469  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22011,584,773 - 11,584,965 (+)MAPPER
Rnor_6.02012,335,039 - 12,335,230NCBIRnor6.0
Rnor_5.02014,497,422 - 14,497,613UniSTSRnor5.0
RGSC_v3.42011,984,647 - 11,984,838UniSTSRGSC3.4
Celera2013,083,503 - 13,083,694UniSTS
Cytogenetic Map20p12UniSTS
RH129841  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22011,584,442 - 11,584,605 (+)MAPPER
Rnor_6.02012,334,708 - 12,334,870NCBIRnor6.0
Rnor_5.02014,497,091 - 14,497,253UniSTSRnor5.0
RGSC_v3.42011,984,316 - 11,984,478UniSTSRGSC3.4
Celera2013,083,172 - 13,083,334UniSTS
RH 3.4 Map20177.0UniSTS
Cytogenetic Map20p12UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124652101Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125653396Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20126305996Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20126305996Rat
7387283Uae44Urinary albumin excretion QTL 440.1712urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)20127357423Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20128375393Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20128375393Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20128375393Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20128375393Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20128375393Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20133300419Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20137550487Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20137550487Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20201865447018654Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20299970747999707Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20340211127968216Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20403911318872273Rat
4889857Pur27Proteinuria QTL 2712.20.001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20403911318872273Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)20410895649108956Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20485547515050565Rat
70154Insul2Insulin level QTL 23.75blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20587544818739210Rat
1581577Pur15Proteinuria QTL 154.380.0002total urine protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)20865434118872273Rat
4889870Pur30Proteinuria QTL 30190.005total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20865434130991290Rat
631265Iresp1Immunoglobin response QTL18.3blood anti-double stranded DNA antibody amount (VT:0004762)serum anti-DNA antibody level (CMO:0001533)20965564214411641Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:302
Count of miRNA genes:178
Interacting mature miRNAs:197
Transcripts:ENSRNOT00000044212, ENSRNOT00000065236
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 1 28 18 12 9 12 51 35 25
Low 2 15 39 29 10 29 8 11 23 16 11 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001035232 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_017299 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006256295 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006256296 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006256297 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006256298 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098630 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098631 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098632 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098633 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098634 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF099009 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF099010 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF173642 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY756271 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY756272 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY756273 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC085742 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473988 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000324 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U38180 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000044212   ⟹   ENSRNOP00000041562
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2012,334,676 - 12,352,377 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000065236   ⟹   ENSRNOP00000060579
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2012,334,676 - 12,351,813 (-)Ensembl
RefSeq Acc Id: NM_001035232   ⟹   NP_001030309
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22011,584,410 - 11,601,993 (-)NCBI
Rnor_6.02012,334,675 - 12,352,377 (-)NCBI
Rnor_5.02014,497,058 - 14,515,221 (-)NCBI
RGSC_v3.42011,984,283 - 12,001,865 (-)RGD
Celera2013,083,139 - 13,100,721 (-)RGD
Sequence:
RefSeq Acc Id: NM_017299   ⟹   NP_058995
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22011,584,410 - 11,601,420 (-)NCBI
Rnor_6.02012,334,675 - 12,351,804 (-)NCBI
Rnor_5.02014,497,058 - 14,515,221 (-)NCBI
RGSC_v3.42011,984,283 - 12,001,865 (-)RGD
Celera2013,083,139 - 13,100,148 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039098630   ⟹   XP_038954558
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22011,584,410 - 11,601,470 (-)NCBI
RefSeq Acc Id: XM_039098631   ⟹   XP_038954559
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22011,584,410 - 11,602,402 (-)NCBI
RefSeq Acc Id: XM_039098632   ⟹   XP_038954560
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22011,584,410 - 11,601,471 (-)NCBI
RefSeq Acc Id: XM_039098633   ⟹   XP_038954561
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22011,584,410 - 11,602,429 (-)NCBI
RefSeq Acc Id: XM_039098634   ⟹   XP_038954562
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22011,589,433 - 11,601,487 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001030309   ⟸   NM_001035232
- UniProtKB: Q9QUM8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_058995   ⟸   NM_017299
- UniProtKB: Q9QUM8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000060579   ⟸   ENSRNOT00000065236
RefSeq Acc Id: ENSRNOP00000041562   ⟸   ENSRNOT00000044212
RefSeq Acc Id: XP_038954561   ⟸   XM_039098633
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038954559   ⟸   XM_039098631
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038954560   ⟸   XM_039098632
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038954558   ⟸   XM_039098630
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038954562   ⟸   XM_039098634
- Peptide Label: isoform X2

Transcriptome

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

Promoters
RGD ID:13701510
Promoter ID:EPDNEW_R12034
Type:initiation region
Name:Slc19a1_1
Description:solute carrier family 19 member 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R12035  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02012,351,761 - 12,351,821EPDNEW
RGD ID:13701511
Promoter ID:EPDNEW_R12035
Type:initiation region
Name:Slc19a1_2
Description:solute carrier family 19 member 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R12034  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02012,352,357 - 12,352,417EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (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)
ACI/EurMcwi (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
ACI/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
BBDP/Wor (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
BN/SsN (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
Buf/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
COP/CrCrl (MCW & UW)
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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)
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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
F344/NRrrc (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
FHH/EurMcwi (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)
FHH/EurMcwi (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
FHL/EurMcwi (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)
FHL/EurMcwi (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
GH/OmrMcwi (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)
GK/Ox (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
LE/Stm (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
LEW/Crl (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
LEW/NCrlBR (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
LH/MavRrrc (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
LL/MavRrrc (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
LN/MavRrrc (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
M520/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
MHS/Gib (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
MNS/Gib (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
MR/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
SBH/Ygl (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: SBH/Ygl sequenced by MCW
SBH/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
SBN/Ygl (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: 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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3695 AgrOrtholog
Ensembl Genes ENSRNOG00000001232 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000041562 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000060579 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000044212 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000065236 ENTREZGENE, UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7193913 IMAGE-MGC_LOAD
InterPro Folate_carrier UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MFS_trans_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RFC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:29723 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93506 IMAGE-MGC_LOAD
NCBI Gene 29723 ENTREZGENE
PANTHER PTHR10686 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR10686:SF12 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Folate_carrier UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB SLC19A1 RGD
PhenoGen Slc19a1 PhenoGen
PIRSF Folate_carrier UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Folate_transporter_1 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF103473 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGRFAMs rfc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt Q5UD31_RAT UniProtKB/TrEMBL
  Q5UD32_RAT UniProtKB/TrEMBL
  Q62866 ENTREZGENE
  Q9QUM8 ENTREZGENE
  S19A1_RAT UniProtKB/Swiss-Prot
UniProt Secondary D3ZQS7 UniProtKB/Swiss-Prot
  E9PSR9 UniProtKB/TrEMBL
  Q9QUM8 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-25 Slc19a1  solute carrier family 19 member 1  Slc19a1  solute carrier family 19 (folate transporter), member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-19 Slc19a1  solute carrier family 19 (folate transporter), member 1  Slc19a1  solute carrier family 19 (sodium/hydrogen exchanger), member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-24 Slc19a1  solute carrier family 19 (sodium/hydrogen exchanger), member 1  Slc19a1  solute carrier family 19, member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Slc19a1  solute carrier family 19, member 1      Name updated 70584 APPROVED