Slc35f1 (solute carrier family 35, member F1) - Rat Genome Database

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Gene: Slc35f1 (solute carrier family 35, member F1) Mus musculus
Analyze
Symbol: Slc35f1
Name: solute carrier family 35, member F1
RGD ID: 1557249
MGI Page MGI
Description: Predicted to enable transmembrane transporter activity. Predicted to be involved in transmembrane transport. Predicted to be located in synaptic vesicle membrane. Is expressed in several structures, including central nervous system and dorsal root ganglion. Orthologous to human SLC35F1 (solute carrier family 35 member F1).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Duf6; DUF6 containing protein; Duf6-pending; E130016L02; solute carrier family 35 member F1
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
GRCm391052,566,597 - 52,987,718 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1052,566,629 - 52,987,718 (+)EnsemblGRCm39 Ensembl
GRCm381052,690,501 - 53,111,622 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1052,690,533 - 53,111,622 (+)EnsemblGRCm38mm10GRCm38
MGSCv371052,410,307 - 52,831,428 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361052,379,020 - 52,799,820 (+)NCBIMGSCv36mm8
Celera1053,520,703 - 53,940,827 (+)NCBICelera
Cytogenetic Map10B3NCBI
cM Map1026.79NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. 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.
2. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. 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:11217851   PMID:12477932   PMID:15782199   PMID:16141072   PMID:16141073   PMID:18799693   PMID:21267068   PMID:21677750  
PMID:24652767   PMID:30868340   PMID:30973865   PMID:36951990   PMID:38355793  


Genomics

Comparative Map Data
Slc35f1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391052,566,597 - 52,987,718 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1052,566,629 - 52,987,718 (+)EnsemblGRCm39 Ensembl
GRCm381052,690,501 - 53,111,622 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1052,690,533 - 53,111,622 (+)EnsemblGRCm38mm10GRCm38
MGSCv371052,410,307 - 52,831,428 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361052,379,020 - 52,799,820 (+)NCBIMGSCv36mm8
Celera1053,520,703 - 53,940,827 (+)NCBICelera
Cytogenetic Map10B3NCBI
cM Map1026.79NCBI
SLC35F1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386117,907,264 - 118,317,671 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6117,907,264 - 118,317,676 (+)EnsemblGRCh38hg38GRCh38
GRCh376118,228,427 - 118,638,834 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 366118,335,382 - 118,745,524 (+)NCBINCBI36Build 36hg18NCBI36
Celera6118,971,646 - 119,382,119 (+)NCBICelera
Cytogenetic Map6q22.2-q22.31NCBI
HuRef6115,810,419 - 116,220,605 (+)NCBIHuRef
CHM1_16118,492,503 - 118,903,030 (+)NCBICHM1_1
T2T-CHM13v2.06119,091,523 - 119,502,777 (+)NCBIT2T-CHM13v2.0
Slc35f1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82032,573,091 - 32,961,466 (+)NCBIGRCr8
mRatBN7.22032,030,350 - 32,418,762 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2032,030,368 - 32,418,611 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2033,035,343 - 33,430,558 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02032,426,256 - 32,821,484 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02033,156,335 - 33,550,367 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02033,772,314 - 34,420,970 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2034,258,791 - 34,420,824 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02036,017,841 - 36,174,326 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.02035,547,207 - 35,550,654 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42031,621,873 - 31,770,094 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera2033,423,045 - 33,810,001 (+)NCBICelera
Cytogenetic Map20q11NCBI
Slc35f1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554361,182,392 - 1,312,183 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554361,096,156 - 1,312,183 (+)NCBIChiLan1.0ChiLan1.0
SLC35F1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25137,923,742 - 138,333,315 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16135,816,765 - 136,226,294 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v06115,718,178 - 116,127,742 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.16120,108,341 - 120,268,465 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6120,108,341 - 120,268,465 (+)Ensemblpanpan1.1panPan2
SLC35F1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1158,010,752 - 58,397,987 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl158,010,752 - 58,397,987 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha158,813,727 - 59,200,879 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0158,195,171 - 58,581,763 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl158,195,171 - 58,584,852 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1158,096,113 - 58,483,248 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0157,937,032 - 58,324,271 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0158,568,680 - 58,956,252 (+)NCBIUU_Cfam_GSD_1.0
Slc35f1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946108,969,383 - 109,131,396 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366581,076,196 - 1,238,276 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936658851,751 - 1,238,263 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC35F1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl143,653,460 - 43,837,390 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1143,653,453 - 44,057,851 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2148,982,795 - 49,188,744 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SLC35F1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11355,556,862 - 55,955,502 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1355,554,744 - 55,719,375 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604027,864,115 - 28,280,919 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Slc35f1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462479811,683,337 - 12,000,021 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462479811,680,474 - 12,000,007 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Slc35f1
11935 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:791
Count of miRNA genes:481
Interacting mature miRNAs:562
Transcripts:ENSMUST00000105473
Prediction methods:Miranda, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300882Ath17_matherosclerosis 17 (mouse)Not determined105109149085091639Mouse
39128215Lwq17_mliver weight QTL 17 (mouse)101270405184079784Mouse
1302160Mbis2_mMycobacterium bovis-induced systemic lupus erythematosus 2 (mouse)Not determined102028318556031223Mouse
4141943W6q6_mweight 6 weeks QTL 6 (mouse)Not determined1270405184079784Mouse
27226772Tibl13_mtibia length 13, 10 week (mouse)1018875748129635869Mouse
21079434Bdym5_mbody mass QTL 5 (mouse)104054599654836096Mouse
14697707Stsl2_mSalmonella typhimurium susceptibility locus 2 (mouse)104627609653876096Mouse
1357656Hrtq3_mheart weight QTL 3 (mouse)Not determined101270405184079784Mouse
14746991Manh68_mmandible shape 68 (mouse)105228049786280497Mouse
26884426Cvht1_mcranial vault height 1, 5 week (mouse)1024675898121035905Mouse
10045641Jckm3_mjuvenile cystic kidney modifier 3 (mouse)Not determined104984818783848412Mouse
4142380W3q11_mweight 3 weeks QTL 11 (mouse)Not determined1270405184079784Mouse
27226764Tibl19_mtibia length 19, 16 week (mouse)1039175996129635869Mouse
1357825Kidpq2_mkidney weight percentage QTL 2 (mouse)Not determined101270405184079784Mouse
1302150Bbaa18_mB.burgdorferi-associated arthritis 18 (mouse)Not determined104933801283338157Mouse
4142313Angvq1_mangiogenesis by VEGF QTL 1 (mouse)Not determined4672040382491121Mouse
1301380Cia8_mcollagen induced arthritis QTL 8 (mouse)Not determined105149340082491121Mouse
1301003Lmblgq4_mlimb length QTL 4 (mouse)Not determined102159119268091639Mouse
4141159Phl2_mprogressive hearing loss 2 (mouse)Not determined104797449970112651Mouse
1301386Sysbp1_msystolic blood pressure 1 (mouse)Not determined101010826587401095Mouse
10045632Heal16_mwound healing/regeneration 16 (mouse)Not determined103097449964974630Mouse
10755518Chol16_mcholesterol 16 (mouse)101891504352915043Mouse
1301966Lifespan2_mlife span 2 (mouse)Not determined104984822283848397Mouse
1302092Ath11_matherosclerosis 11 (mouse)Not determined10615194558693521Mouse
26884421Cvht5_mcranial vault height 5, 10 week (mouse)104557609669135830Mouse
1302067Scc9_mcolon tumor susceptibility 9 (mouse)Not determined1018259333125575232Mouse
26884411Bzwq8_mbi-zygomatic width QTL 8, 10 week (mouse)1044876096115935905Mouse
1357558Bmch4_mbone mechanical trait 4 (mouse)Not determined103157713665577284Mouse
1300597Skull14_mskull morphology 14 (mouse)Not determined104984818783848412Mouse
4142169Pbwg16_mpostnatal body weight growth 16 (mouse)Not determined104984818783848412Mouse
26884403Cvht8_mcranial vault height 8, 16 week (mouse)102287589991035862Mouse
26884400Huml5_mhumerus length 5, 16 week (mouse)104627609669235830Mouse
27095920Pglq9_mpelvic girdle length QTL 9, 10 week (mouse)103377599670835830Mouse
26884407Bzwq14_mbi-zygomatic width QTL 14, 16 wee (mouse)1045476096120635905Mouse
1301502Eae17_msusceptibility to experimental allergic encephalomyelitis 17 (mouse)Not determined105109149085091639Mouse
1300898Cfid_mcystic fibrosis intestinal distress (mouse)Not determined102972040363720483Mouse
4141070Ltgq1_mliver triglyceride QTL 1 (mouse)Not determined4123732675237326Mouse
1558757Eae34_mexperimental allergic encephalomyelitis susceptibility 34 (mouse)Not determined1021408154114217230Mouse
1357740Obsty3_mobesity 3 (mouse)Not determined108235478116190980Mouse
27095911Pglq15_mpelvic girdle length QTL 15, 16 week (mouse)1039175996129635869Mouse
4141956Egq7_mearly growth QTL 7 (mouse)Not determined1270405184079784Mouse
1357864Scfpq1_msubcutaneous fat pad percentage QTL 1 (mouse)Not determined101270405184079784Mouse
1357737Hpcr2_mhepatocarcinogen resistance 2 (mouse)Not determined104984822283848397Mouse
4142272W10q5_mweight 10 weeks QTL 5 (mouse)Not determined1270405184079784Mouse

Markers in Region
D10Mit128  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381052,873,482 - 52,873,642UniSTSGRCm38
MGSCv371052,593,288 - 52,593,448UniSTSGRCm37
Celera1053,704,703 - 53,704,863UniSTS
Cytogenetic Map10B3UniSTS
cM Map1030.0UniSTS
Whitehead Genetic1021.9UniSTS
D10Mit218  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381052,841,877 - 52,842,001UniSTSGRCm38
MGSCv371052,561,683 - 52,561,807UniSTSGRCm37
Celera1053,673,062 - 53,673,188UniSTS
Cytogenetic Map10B3UniSTS
cM Map1029.0UniSTS
Whitehead Genetic1020.8UniSTS
Slc35f1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map10B3UniSTS
cM Map1026.79UniSTS


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_178675 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC121805 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC153485 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC155830 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC164576 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK038601 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK048957 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK053426 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK053545 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK083768 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK139331 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK163806 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK165021 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK166268 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK207626 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AV378396 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC059075 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BY285045 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466540 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSMUST00000105473   ⟹   ENSMUSP00000101113
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1052,566,629 - 52,987,718 (+)Ensembl
GRCm38.p6 Ensembl1052,690,533 - 53,111,622 (+)Ensembl
RefSeq Acc Id: NM_178675   ⟹   NP_848790
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391052,566,597 - 52,987,718 (+)NCBI
GRCm381052,690,501 - 53,111,622 (+)ENTREZGENE
MGSCv371052,410,307 - 52,831,428 (+)RGD
Celera1053,520,703 - 53,940,827 (+)RGD
cM Map10 ENTREZGENE
Sequence:
RefSeq Acc Id: NP_848790   ⟸   NM_178675
- UniProtKB: Q8BX52 (UniProtKB/Swiss-Prot),   Q8BVI2 (UniProtKB/Swiss-Prot),   Q8BKD4 (UniProtKB/Swiss-Prot),   Q8BGK5 (UniProtKB/Swiss-Prot),   Q3TNT3 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSMUSP00000101113   ⟸   ENSMUST00000105473

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8BGK5-F1-model_v2 AlphaFold Q8BGK5 1-408 view protein structure

Promoters
RGD ID:8671972
Promoter ID:EPDNEW_M14017
Type:initiation region
Name:Slc35f1_1
Description:Mus musculus solute carrier family 35, member F1 , 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
GRCm381052,690,507 - 52,690,567EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2139810 AgrOrtholog
Ensembl Genes ENSMUSG00000038602 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000105473 ENTREZGENE
  ENSMUST00000105473.3 UniProtKB/Swiss-Prot
InterPro SLC35_F1/F2/F6 UniProtKB/Swiss-Prot
  SLC35F_Transporter UniProtKB/Swiss-Prot
KEGG Report mmu:215085 UniProtKB/Swiss-Prot
MGD MGI:2139810 ENTREZGENE
NCBI Gene Slc35f1 ENTREZGENE
PANTHER DUF914-RELATED UniProtKB/Swiss-Prot
  SOLUTE CARRIER FAMILY 35 MEMBER F1 UniProtKB/Swiss-Prot
Pfam SLC35F UniProtKB/Swiss-Prot
PhenoGen Slc35f1 PhenoGen
Superfamily-SCOP Multidrug resistance efflux transporter EmrE UniProtKB/Swiss-Prot
UniProt Q3TNT3 ENTREZGENE
  Q8BGK5 ENTREZGENE
  Q8BKD4 ENTREZGENE
  Q8BVI2 ENTREZGENE
  Q8BX52 ENTREZGENE
  S35F1_MOUSE UniProtKB/Swiss-Prot
UniProt Secondary Q3TNT3 UniProtKB/Swiss-Prot
  Q8BKD4 UniProtKB/Swiss-Prot
  Q8BVI2 UniProtKB/Swiss-Prot
  Q8BX52 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2024-08-21 Slc35f1  solute carrier family 35, member F1  Duf6-pending  DUF6 containing protein  Symbol and/or name change 5135510 APPROVED
2024-08-21 Duf6-pending  DUF6 containing protein  Slc35f1  solute carrier family 35, member F1  Symbol and/or name change 5135510 APPROVED