Slc41a1 (solute carrier family 41, member 1) - Rat Genome Database

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Gene: Slc41a1 (solute carrier family 41, member 1) Mus musculus
Analyze
Symbol: Slc41a1
Name: solute carrier family 41, member 1
RGD ID: 1322839
MGI Page MGI
Description: Enables inorganic cation transmembrane transporter activity. Involved in cellular response to magnesium ion and magnesium ion transmembrane transport. Predicted to be located in basolateral plasma membrane. Predicted to be part of protein-containing complex. Predicted to be active in plasma membrane. Is expressed in several structures, including alimentary system; central nervous system; genitourinary system; mesenteric adipose tissue; and respiratory system. Human ortholog(s) of this gene implicated in nephronophthisis. Orthologous to human SLC41A1 (solute carrier family 41 member 1).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: AI573938; B230315F01Rik; solute carrier family 41 member 1
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391131,755,236 - 131,776,601 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1131,755,231 - 131,776,603 (+)EnsemblGRCm39 Ensembl
GRCm381131,828,012 - 131,848,863 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1131,827,493 - 131,848,865 (+)EnsemblGRCm38mm10GRCm38
MGSCv371133,724,589 - 133,745,440 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361133,655,523 - 133,676,409 (+)NCBIMGSCv36mm8
Celera1134,432,506 - 134,453,353 (+)NCBICelera
Cytogenetic Map1E4NCBI
cM Map157.2NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:14681479   PMID:15713785   PMID:15782199   PMID:16141072   PMID:16141073   PMID:21267068  
PMID:21873635   PMID:24194600   PMID:27302215   PMID:28222767   PMID:32554809   PMID:33153064   PMID:33859252   PMID:35163580   PMID:36049064   PMID:38355793  


Genomics

Comparative Map Data
Slc41a1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391131,755,236 - 131,776,601 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1131,755,231 - 131,776,603 (+)EnsemblGRCm39 Ensembl
GRCm381131,828,012 - 131,848,863 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1131,827,493 - 131,848,865 (+)EnsemblGRCm38mm10GRCm38
MGSCv371133,724,589 - 133,745,440 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361133,655,523 - 133,676,409 (+)NCBIMGSCv36mm8
Celera1134,432,506 - 134,453,353 (+)NCBICelera
Cytogenetic Map1E4NCBI
cM Map157.2NCBI
SLC41A1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381205,789,095 - 205,813,198 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1205,789,094 - 205,813,748 (-)EnsemblGRCh38hg38GRCh38
GRCh371205,758,223 - 205,782,326 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361204,024,844 - 204,048,784 (-)NCBINCBI36Build 36hg18NCBI36
Build 341202,489,878 - 202,513,818NCBI
Celera1178,894,473 - 178,918,404 (-)NCBICelera
Cytogenetic Map1q32.1NCBI
HuRef1176,922,911 - 176,946,834 (-)NCBIHuRef
CHM1_11207,181,729 - 207,205,652 (-)NCBICHM1_1
T2T-CHM13v2.01205,053,767 - 205,077,853 (-)NCBIT2T-CHM13v2.0
Slc41a1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81345,822,999 - 45,843,364 (+)NCBIGRCr8
mRatBN7.21343,270,792 - 43,291,162 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1343,270,792 - 43,291,162 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1345,874,200 - 45,894,572 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01347,162,346 - 47,182,718 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01344,427,031 - 44,447,368 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01348,607,308 - 48,627,999 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1348,607,308 - 48,627,999 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01353,681,648 - 53,701,895 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41344,766,706 - 44,777,526 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11344,783,241 - 44,791,595 (+)NCBI
Celera1343,608,641 - 43,629,021 (+)NCBICelera
Cytogenetic Map13q13NCBI
Slc41a1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540641,481,831 - 41,502,992 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540641,481,831 - 41,502,992 (-)NCBIChiLan1.0ChiLan1.0
SLC41A1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2143,555,805 - 43,580,543 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1143,519,795 - 43,545,902 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01181,398,145 - 181,422,830 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11185,681,822 - 185,706,424 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1185,681,822 - 185,705,844 (-)Ensemblpanpan1.1panPan2
SLC41A1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1382,216,378 - 2,239,303 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl382,218,706 - 2,236,672 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha382,309,253 - 2,332,189 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0382,213,651 - 2,236,582 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl382,213,653 - 2,235,882 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1382,209,583 - 2,230,157 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0382,599,591 - 2,622,513 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0382,800,021 - 2,822,961 (-)NCBIUU_Cfam_GSD_1.0
Slc41a1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934469,400,750 - 69,421,846 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365576,640,813 - 6,662,699 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365576,640,197 - 6,662,128 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC41A1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl966,473,341 - 66,499,805 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1966,473,369 - 66,500,367 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2972,739,718 - 72,766,654 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SLC41A1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12523,536,187 - 23,560,182 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2523,535,263 - 23,560,174 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605524,230,986 - 24,255,631 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Slc41a1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248075,445,121 - 5,466,095 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248075,445,111 - 5,465,844 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1256
Count of miRNA genes:659
Interacting mature miRNAs:797
Transcripts:ENSMUST00000086559, ENSMUST00000132585, ENSMUST00000146360
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.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
27095901Scvln8_msacral vertebrae length 2, 10 week (mouse)194127725172027567Mouse
11039528Ccc3_mcolitis susceptibility in the Collaborative Cross 3 (mouse)13680142195051546Mouse
1302098Eila1_methanol induced locomotor activity 1 (mouse)Not determined1112008822175468938Mouse
1302161Exq2_mexploratory and excitability QTL 2 (mouse)Not determined1118099720152099816Mouse
1357847Jckm2_mjuvenile cystic kidney modifier 2 (mouse)Not determined174991977133290937Mouse
27226779Tibl1_mtibia length 1, 5 week (mouse)195527725162027569Mouse
27226714Metcl1_mmetatarsal-calcaneal length 1, 5 week (mouse)1121727729139727738Mouse
10412185Hcs9_mhepatocarcinogenesis susceptibility 9 (mouse)Not determined163854690189303617Mouse
1301979Melm1_mmelanoma modifier 1 (mouse)Not determined1109638262143638479Mouse
1301722Cia9_mcollagen induced arthritis QTL 9 (mouse)Not determined145783900189303617Mouse
13824984Twq5_mtestis weight QTL 5 (mouse)13069992184732197Mouse
1301149Lrnx12_mlearning-contextual 12 (mouse)Not determined1112008822168186402Mouse
27226767Tibl10_mtibia length 10, 10 week (mouse)1121727729164827569Mouse
10045640Jckm4_mjuvenile cystic kidney modifier 4 (mouse)Not determined1116290836150290937Mouse
12790994Aaaq1_maortic arch angle QTL 1 (mouse)1109495943143495943Mouse
1301249Sbw1_msplenomegaly-NZB x NZW 1 (mouse)Not determined1112131005146131085Mouse
1301193Lxw3_mlupus BXSB x NZW 3 (mouse)Not determined1102968534136968667Mouse
1558860W10q7_mweight 10 weeks QTL 7 (mouse)Not determined134760138150193871Mouse
10412162Nobq3_mNew Zealand obese QTL 3 (mouse)Not determined1103933405191225397Mouse
12880408V125Dq3_mvitamin D active form serum level QTL 3 (mouse)1122927738156927738Mouse
27095935Ulnl5_mulna length 5, 10 week (mouse)1128727737181327565Mouse
1302128Ity3_mimmunity to S. typhimurium 3 (mouse)Not determined11131156308165139464Mouse
1357488Splq3_mspleen weight QTL 3 (mouse)Not determined134760138150193871Mouse
4141914Gcsfis_mG-CSF induced splenomegaly (mouse)Not determined74516235148715579Mouse
27095928Pglq6_mpelvic girdle length QTL 6, 10 week (mouse)175976637148775742Mouse
13524520Bodwtq1_mbody wweight QTL 1 (mouse)1131191160135621161Mouse
27226743Metcl7_mmetatarsal-calcaneal length 7, 10 week (mouse)1121727729153875746Mouse
1357439Popoa_mpremature ovulation and primary oocyte arrest (mouse)Not determined182643189135615379Mouse
27226740Metcl13_mmetatarsal-calcaneal length 13, 16 week (mouse)1121727729153775746Mouse
4142291Aec2_mautoimmune exocrinopathy 2 (mouse)Not determined52457737182250592Mouse
1357753Kidq2_mkidney weight QTL 2 (mouse)Not determined134760138150193871Mouse
1300989Lrdg1_mlight induced retinal degeneration 1 (mouse)Not determined173755175147125370Mouse
27226799Feml5_mfemur length 5, 5 week (mouse)1122027729164827569Mouse
1301536Pbbcp1_mperipheral blood B cell percentage 1 (mouse)Not determined199507660133507845Mouse
1357600Obq17_mobesity QTL 17 (mouse)Not determined1110553179144553298Mouse
27095913Scvln2_msacral vertebrae length 2, 5 week (mouse)194127725148775742Mouse
1301350Nidd4k_mNidd4 on KK-A (mouse)Not determined782291982147125370Mouse
27095915Scvln13_msacral vertebrae length 2, 16 week (mouse)1117527730179827565Mouse
1300841Ssial1_msusceptibility to sialadenitis 1 (mouse)Not determined163920002153557562Mouse
26884448Sklq1_mskull length QTL 1, 5 week (mouse)175976637181327565Mouse
1301608Emo3_memotionality 3 (mouse)Not determined1129130858163130993Mouse
10401248Bglu12_mblood glucose level 12 (mouse)Not determined1110553179144553298Mouse

Markers in Region
RH129649  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381131,848,640 - 131,848,817UniSTSGRCm38
MGSCv371133,745,217 - 133,745,394UniSTSGRCm37
Celera1134,453,130 - 134,453,307UniSTS
Cytogenetic Map1E4UniSTS
AI573938  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381131,848,540 - 131,848,678UniSTSGRCm38
MGSCv371133,745,117 - 133,745,255UniSTSGRCm37
Celera1134,453,030 - 134,453,168UniSTS
Cytogenetic Map1E4UniSTS
Whitehead/MRC_RH11746.96UniSTS
Slc41a1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map1E4UniSTS
cM Map157.2UniSTS


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000086559   ⟹   ENSMUSP00000083747
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1131,755,715 - 131,776,603 (+)Ensembl
GRCm38.p6 Ensembl1131,827,977 - 131,848,865 (+)Ensembl
Ensembl Acc Id: ENSMUST00000132585
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1131,755,231 - 131,758,014 (+)Ensembl
GRCm38.p6 Ensembl1131,827,493 - 131,830,276 (+)Ensembl
Ensembl Acc Id: ENSMUST00000146360
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1131,770,578 - 131,774,367 (+)Ensembl
GRCm38.p6 Ensembl1131,842,840 - 131,846,629 (+)Ensembl
RefSeq Acc Id: NM_173865   ⟹   NP_776290
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391131,755,750 - 131,776,601 (+)NCBI
GRCm381131,828,012 - 131,848,863 (+)NCBI
MGSCv371133,724,589 - 133,745,440 (+)RGD
Celera1134,432,506 - 134,453,353 (+)RGD
cM Map1 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_036154630   ⟹   XP_036010523
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391131,755,236 - 131,776,601 (+)NCBI
Sequence:
RefSeq Acc Id: XM_036154631   ⟹   XP_036010524
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391131,755,709 - 131,776,601 (+)NCBI
Sequence:
RefSeq Acc Id: NP_776290   ⟸   NM_173865
- UniProtKB: Q8BJA2 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSMUSP00000083747   ⟸   ENSMUST00000086559
RefSeq Acc Id: XP_036010523   ⟸   XM_036154630
- Peptide Label: isoform X1
- UniProtKB: Q8BJA2 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_036010524   ⟸   XM_036154631
- Peptide Label: isoform X1
- UniProtKB: Q8BJA2 (UniProtKB/Swiss-Prot)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8BJA2-F1-model_v2 AlphaFold Q8BJA2 1-512 view protein structure

Promoters
RGD ID:6874886
Promoter ID:EPDNEW_M894
Type:initiation region
Name:Slc41a1_1
Description:Mus musculus solute carrier family 41, member 1 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381131,828,012 - 131,828,072EPDNEW
RGD ID:6818483
Promoter ID:MM_KWN:2048
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   3T3L1_Day6,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:OTTMUST00000051727,   OTTMUST00000051728
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361133,724,256 - 133,724,756 (+)MPROMDB
RGD ID:6818481
Promoter ID:MM_KWN:2049
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain
Transcripts:OTTMUST00000051729
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361133,738,301 - 133,738,801 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2444823 AgrOrtholog
Ensembl Genes ENSMUSG00000013275 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000086559 ENTREZGENE
  ENSMUST00000086559.7 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.357.20 UniProtKB/Swiss-Prot
InterPro SLC41_membr_dom UniProtKB/Swiss-Prot
  SLC41_membr_dom_sf UniProtKB/Swiss-Prot
  SLC41A1-3 UniProtKB/Swiss-Prot
KEGG Report mmu:98396 UniProtKB/Swiss-Prot
MGD MGI:2444823 ENTREZGENE
NCBI Gene Slc41a1 ENTREZGENE
PANTHER PTHR16228 UniProtKB/Swiss-Prot
  SOLUTE CARRIER FAMILY 41 MEMBER 1 UniProtKB/Swiss-Prot
Pfam MgtE UniProtKB/Swiss-Prot
PhenoGen Slc41a1 PhenoGen
Superfamily-SCOP SSF161093 UniProtKB/Swiss-Prot
UniProt Q8BJA2 ENTREZGENE, UniProtKB/Swiss-Prot