Slc25a46 (solute carrier family 25, member 46) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Slc25a46 (solute carrier family 25, member 46) Mus musculus
Analyze
Symbol: Slc25a46
Name: solute carrier family 25, member 46
RGD ID: 1332229
MGI Page MGI
Description: Acts upstream of or within several processes, including autophagy of mitochondrion; locomotion involved in locomotory behavior; and nervous system development. Located in mitochondrial outer membrane. Is expressed in craniocervical region bone; ear; jaw; nervous system; and respiratory system. Used to study Charcot-Marie-Tooth disease type 6. Human ortholog(s) of this gene implicated in pontocerebellar hypoplasia type 1E. Orthologous to human SLC25A46 (solute carrier family 25 member 46).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 1200007B05Rik; AI325987; mitochondrial outer membrane protein SLC25A46; solute carrier family 25 member 46
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391831,713,217 - 31,743,585 (-)NCBIGRCm39mm39
GRCm39 Ensembl1831,689,164 - 31,742,964 (-)Ensembl
GRCm381831,580,164 - 31,610,532 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1831,556,111 - 31,609,911 (-)EnsemblGRCm38mm10GRCm38
MGSCv371831,739,822 - 31,769,556 (-)NCBIGRCm37mm9NCBIm37
MGSCv361831,723,178 - 31,752,912 (-)NCBImm8
Celera1832,066,392 - 32,096,325 (-)NCBICelera
Cytogenetic Map18B1NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

References - curated
# Reference Title Reference Citation
1. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
2. Electronic Transfer of Homolog Data MGD and Homologene mouse data transfer
3. MGDs mouse GO annotations MGD data from the GO Consortium
4. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:11042159   PMID:11076861   PMID:12477932   PMID:14681479   PMID:16141072   PMID:16141073   PMID:18614015   PMID:21267068   PMID:21677750   PMID:21873635  
PMID:28376083   PMID:28376086   PMID:28934388   PMID:31138677   PMID:31943007   PMID:32581705  


Genomics

Comparative Map Data
Slc25a46
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391831,713,217 - 31,743,585 (-)NCBIGRCm39mm39
GRCm39 Ensembl1831,689,164 - 31,742,964 (-)Ensembl
GRCm381831,580,164 - 31,610,532 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1831,556,111 - 31,609,911 (-)EnsemblGRCm38mm10GRCm38
MGSCv371831,739,822 - 31,769,556 (-)NCBIGRCm37mm9NCBIm37
MGSCv361831,723,178 - 31,752,912 (-)NCBImm8
Celera1832,066,392 - 32,096,325 (-)NCBICelera
Cytogenetic Map18B1NCBI
SLC25A46
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385110,738,145 - 110,765,157 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl5110,738,136 - 110,765,161 (+)EnsemblGRCh38hg38GRCh38
GRCh375110,073,846 - 110,100,857 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 365110,102,653 - 110,126,383 (+)NCBINCBI36hg18NCBI36
Celera5106,020,634 - 106,044,366 (+)NCBI
Cytogenetic Map5q22.1NCBI
HuRef5105,253,919 - 105,277,582 (+)NCBIHuRef
CHM1_15109,508,066 - 109,531,797 (+)NCBICHM1_1
T2T-CHM13v2.05111,248,730 - 111,275,743 (+)NCBI
Slc25a46
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21823,215,954 - 23,244,917 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1823,215,962 - 23,244,314 (-)Ensembl
Rnor_6.01824,369,104 - 24,397,412 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1824,369,125 - 24,397,551 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01824,086,612 - 24,114,920 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41823,989,587 - 24,017,895 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11824,016,832 - 24,044,563 (-)NCBI
Celera1822,970,075 - 22,998,354 (-)NCBICelera
Cytogenetic Map18p12NCBI
Slc25a46
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554184,316,790 - 4,341,973 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554184,316,790 - 4,342,748 (-)NCBIChiLan1.0ChiLan1.0
SLC25A46
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.15111,907,978 - 111,935,036 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5111,908,842 - 111,935,029 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v05106,106,112 - 106,132,355 (+)NCBIMhudiblu_PPA_v0panPan3
SLC25A46
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.131,700,310 - 1,715,841 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl31,702,905 - 1,756,025 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha33,105,200 - 3,128,254 (-)NCBI
ROS_Cfam_1.031,592,695 - 1,615,756 (-)NCBI
ROS_Cfam_1.0 Ensembl31,592,695 - 1,615,811 (-)Ensembl
UMICH_Zoey_3.131,537,522 - 1,560,555 (-)NCBI
UNSW_CanFamBas_1.031,569,172 - 1,592,255 (-)NCBI
UU_Cfam_GSD_1.031,704,919 - 1,727,977 (-)NCBI
Slc25a46
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213156,407,553 - 156,434,512 (-)NCBI
SpeTri2.0NW_0049365315,177,750 - 5,201,362 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC25A46
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl2115,529,704 - 115,555,440 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.12115,529,662 - 115,555,441 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22120,019,165 - 120,045,084 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SLC25A46
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12314,113,276 - 14,139,758 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl2314,113,375 - 14,136,424 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603645,023 - 71,660 (-)NCBIVero_WHO_p1.0
Slc25a46
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474328,584,209 - 28,613,397 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
AI325987  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381831,581,730 - 31,581,811UniSTSGRCm38
MGSCv371831,741,384 - 31,741,465UniSTSGRCm37
Celera1832,067,954 - 32,068,035UniSTS
Cytogenetic Map18B1UniSTS
Whitehead/MRC_RH18475.61UniSTS
Slc25a46  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map18B1UniSTS
cM Map1817.79UniSTS


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
12801462Intim3_mintima modifier 3 (mouse)18131720756Mouse
12801458Intmrm3_mintima/media ratio modifier 3 (mouse)18131720756Mouse
13207585Mwmlpt3_mMorris water maze latency to platform, training, 3 (mouse)18133547739Mouse
13207589Mwmlpa3_mMorris water maze latency to platform, all, 3 (mouse)18133547739Mouse
27226723Tibw9_mtibia width 9, proximal, 16 week (mouse)18320000060933072Mouse
1558849W3q15_mweight 3 weeks QTL 15 (mouse)Not determined18504111961272643Mouse
1558873Hrtfm7_mheart failure modifier 7 (mouse)Not determined18808696442087106Mouse
13504732Cath6_mcarotid atherosclerosis 6 (mouse)181363712647637126Mouse
1357603Mom3_mmodifier of Min 3 (mouse)Not determined181403002367098962Mouse
1300994Pvcan3_mprotection against vaginal candidiasis 3 (mouse)Not determined181619964050199776Mouse
1301307Phospq1_mphospholipid QTL 1 (mouse)Not determined181813970452139859Mouse
1300638Im7_mimmunoregulatory 7 (mouse)Not determined181901887453018992Mouse
1558743Kcal1_mkilocalorie 1 (mouse)Not determined181901887453018992Mouse
11532709Sluc41_msusceptibility to lung cancer 41 (mouse)182095369457590708Mouse
13463476Hctq8_mhematocrit QTL 8 (mouse)182121758055217727Mouse
1301950Otx2m1_morthodenticle homolog 2 (Drosophila) modifier 1 (mouse)Not determined182156868236187740Mouse
1300877Adip8_madiposity 8 (mouse)Not determined182261991456620127Mouse
11532710Sluc41a_msusceptibility to lung cancer 41a (mouse)182261991456620127Mouse
11532715Sluc41b_msusceptibility to lung cancer 41b (mouse)182261991456620127Mouse
11532716Sluc41c_msusceptibility to lung cancer 41c (mouse)182261991456620127Mouse
1301570Sluc14_msusceptibility to lung cancer 14 (mouse)Not determined182261991456620127Mouse
4142031Moen1_mmodifier of engrailed QTL 1 (mouse)Not determined182411556058115730Mouse
25823173Hrsq12_mhost response to SARS QTL 12, hemorrhage (mouse)182489588178339555Mouse
12904950Smmq3_msoleus muscle mass QTL 3 (mouse)182605687560056875Mouse
25823167Hrsq5_mhost response to SARS QTL 5, D3% weight (mouse)182724111558827077Mouse
25823171Hrsq10_mhost response to SARS QTL 10, D4% weight (mouse)182724111558827077Mouse
25823174Hrsq11_mhost response to SARS QTL 11, log titer (mouse)182724111558827077Mouse
1301400Lmr13_mleishmaniasis resistance 13 (mouse)Not determined182810938062109518Mouse
4141857Mhysq5_mmale hybrid sterility QTL 5 (mouse)Not determined2813060462130739Mouse
1302163Bmd16_mbone mineral density 16 (mouse)Not determined182966791463668060Mouse
12880412V125Dq12_mvitamin D active form serum level QTL 12 (mouse)183023306764233067Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:716
Count of miRNA genes:475
Interacting mature miRNAs:534
Transcripts:ENSMUST00000060396
Prediction methods:Miranda
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


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001357461 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_026165 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC156981 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK003798 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK004473 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK004625 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK006400 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK008131 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK030346 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK031117 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK078383 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK147936 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK160834 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK161372 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BB615124 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC020087 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BY669800 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CA319087 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466557 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000060396   ⟹   ENSMUSP00000053325
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1831,713,221 - 31,742,955 (-)Ensembl
GRCm38.p6 Ensembl1831,580,168 - 31,609,902 (-)Ensembl
RefSeq Acc Id: ENSMUST00000233997   ⟹   ENSMUSP00000157089
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1831,689,164 - 31,742,964 (-)Ensembl
GRCm38.p6 Ensembl1831,556,111 - 31,609,911 (-)Ensembl
RefSeq Acc Id: NM_001357461   ⟹   NP_001344390
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391831,713,217 - 31,743,585 (-)NCBI
GRCm381831,580,164 - 31,610,532 (-)NCBI
Sequence:
RefSeq Acc Id: NM_026165   ⟹   NP_080441
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391831,713,217 - 31,742,983 (-)NCBI
GRCm381831,580,164 - 31,609,930 (-)NCBI
MGSCv371831,739,822 - 31,769,556 (-)RGD
Celera1832,066,392 - 32,096,325 (-)RGD
cM Map18 ENTREZGENE
Sequence:
Reference Sequences
RefSeq Acc Id: NP_080441   ⟸   NM_026165
- Peptide Label: isoform 1
- UniProtKB: Q9CQS4 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001344390   ⟸   NM_001357461
- Peptide Label: isoform 2
RefSeq Acc Id: ENSMUSP00000157089   ⟸   ENSMUST00000233997
RefSeq Acc Id: ENSMUSP00000053325   ⟸   ENSMUST00000060396

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9CQS4-F1-model_v2 AlphaFold Q9CQS4 1-418 view protein structure

Promoters
RGD ID:13677290
Promoter ID:EPDNEW_M22794
Type:multiple initiation site
Name:Slc25a46_1
Description:Mus musculus solute carrier family 25, member 46 , transcriptvariant 2, 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
GRCm381831,609,902 - 31,609,962EPDNEW
RGD ID:6829534
Promoter ID:MM_KWN:24826
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day3,   3T3L1_Day4,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   ES_Cell,   Liver,   Lung,   MEF_B4
Transcripts:ENSMUST00000060396
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361831,769,224 - 31,769,724 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1914703 AgrOrtholog
Ensembl Genes ENSMUSG00000024259 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000053325 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000157089.2 UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000060396 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000233997.2 UniProtKB/TrEMBL
Gene3D-CATH 1.50.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Mitochondrial_sb/sol_carrier UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Mt_carrier_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SLC25A46 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:67453 UniProtKB/Swiss-Prot
MGD MGI:1914703 ENTREZGENE
NCBI Gene 67453 ENTREZGENE
PANTHER PTHR21252 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Mito_carr UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Slc25a46 PhenoGen
PROSITE SOLCAR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF103506 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A3Q4L2U5_MOUSE UniProtKB/TrEMBL
  Q3TTH1_MOUSE UniProtKB/TrEMBL
  Q9CQS4 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q3TUD3 UniProtKB/Swiss-Prot
  Q3UGG7 UniProtKB/Swiss-Prot
  Q8VDX9 UniProtKB/Swiss-Prot