Slc35f3 (solute carrier family 35, member F3) - Rat Genome Database

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Gene: Slc35f3 (solute carrier family 35, member F3) Rattus norvegicus
Analyze
Symbol: Slc35f3
Name: solute carrier family 35, member F3
RGD ID: 1589548
Description: Predicted to be involved in thiamine transport. Predicted to be located in membrane. Orthologous to human SLC35F3 (solute carrier family 35 member F3); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; alpha-Zearalanol; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC679321; putative thiamine transporter SLC35F3; similar to solute carrier family 35, member F3; solute carrier family 35 member F3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81971,000,144 - 71,270,829 (+)NCBIGRCr8
mRatBN7.21954,102,811 - 54,371,765 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1954,103,120 - 54,372,839 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.01958,968,036 - 59,305,300 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1959,186,673 - 59,304,832 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01969,870,274 - 69,944,786 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1953,461,332 - 53,727,486 (+)NCBICelera
Cytogenetic Map19q12NCBI
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
thiamine transport  (IBA,ISO)

Cellular Component
membrane  (IEA)

References

References - curated
# Reference Title Reference Citation
1. 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.
2. GOA pipeline RGD automated data pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:24509276  


Genomics

Comparative Map Data
Slc35f3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81971,000,144 - 71,270,829 (+)NCBIGRCr8
mRatBN7.21954,102,811 - 54,371,765 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1954,103,120 - 54,372,839 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.01958,968,036 - 59,305,300 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1959,186,673 - 59,304,832 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01969,870,274 - 69,944,786 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1953,461,332 - 53,727,486 (+)NCBICelera
Cytogenetic Map19q12NCBI
SLC35F3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381233,904,676 - 234,324,511 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1233,904,676 - 234,324,511 (+)EnsemblGRCh38hg38GRCh38
GRCh371234,040,422 - 234,460,257 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361232,107,302 - 232,526,885 (+)NCBINCBI36Build 36hg18NCBI36
Build 341230,347,413 - 230,766,997NCBI
Celera1207,636,740 - 207,731,155 (+)NCBICelera
Cytogenetic Map1q42.2NCBI
HuRef1204,531,977 - 204,953,282 (+)NCBIHuRef
CHM1_11235,312,534 - 235,732,574 (+)NCBICHM1_1
T2T-CHM13v2.01233,291,129 - 233,714,625 (+)NCBIT2T-CHM13v2.0
Slc35f3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398126,865,155 - 127,122,726 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8126,865,734 - 127,122,717 (+)EnsemblGRCm39 Ensembl
GRCm388126,138,398 - 126,395,987 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8126,138,995 - 126,395,978 (+)EnsemblGRCm38mm10GRCm38
MGSCv378128,822,479 - 128,919,878 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368129,184,689 - 129,281,572 (+)NCBIMGSCv36mm8
Celera8130,608,290 - 130,707,988 (+)NCBICelera
Cytogenetic Map8E2NCBI
cM Map873.82NCBI
Slc35f3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554925,348,949 - 5,441,865 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554925,349,445 - 5,661,186 (-)NCBIChiLan1.0ChiLan1.0
SLC35F3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2114,875,301 - 15,299,509 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1115,086,117 - 15,510,336 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01209,442,942 - 209,865,001 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11214,471,416 - 214,887,155 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1214,471,590 - 214,887,150 (+)Ensemblpanpan1.1panPan2
SLC35F3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.145,526,010 - 5,915,965 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl45,460,906 - 5,915,942 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha45,507,765 - 5,896,249 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.045,546,211 - 5,935,089 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl45,478,898 - 5,935,708 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.145,558,457 - 5,946,040 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.045,676,096 - 6,064,712 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.045,898,791 - 6,287,742 (-)NCBIUU_Cfam_GSD_1.0
Slc35f3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934441,684,051 - 41,923,503 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648417,848,988 - 18,089,048 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493648417,849,285 - 18,088,797 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC35F3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1456,786,918 - 57,106,772 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11456,786,918 - 56,881,046 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21460,839,444 - 60,933,544 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SLC35F3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12571,101,951 - 71,507,323 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2571,416,089 - 71,506,080 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605573,091,602 - 73,531,516 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Slc35f3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477515,996,602 - 16,084,601 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462477515,998,318 - 16,330,835 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Slc35f3
2017 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:106
Count of miRNA genes:90
Interacting mature miRNAs:96
Transcripts:ENSRNOT00000071655
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191563020157337602Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192048357557337602Rat
5135224Leukc1Leukocyte quantity QTL 1eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)194434021455283277Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)192932249057337602Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)193383821455283146Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191545586057337602Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)191715443357337602Rat

Markers in Region
D19Got136  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21954,354,841 - 54,354,974 (+)MAPPERmRatBN7.2
Rnor_6.01959,251,019 - 59,251,151NCBIRnor6.0
Rnor_5.01969,932,361 - 69,932,493UniSTSRnor5.0
Celera1953,710,116 - 53,710,248UniSTS
BE121432  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21954,351,550 - 54,351,730 (+)MAPPERmRatBN7.2
Rnor_6.01959,247,728 - 59,247,907NCBIRnor6.0
Rnor_5.01969,929,070 - 69,929,249UniSTSRnor5.0
Celera1953,706,825 - 53,707,004UniSTS
RH 3.4 Map19749.0UniSTS
UniSTS:224636  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21954,107,343 - 54,107,507 (+)MAPPERmRatBN7.2
Rnor_6.01958,973,623 - 58,973,786NCBIRnor6.0
Rnor_5.01969,666,220 - 69,666,383UniSTSRnor5.0
RGSC_v3.41956,365,868 - 56,366,031UniSTSRGSC3.4
Celera1953,466,918 - 53,467,081UniSTS


Expression

RNA-SEQ Expression

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
8 4 19 102 46 40 26 7 26 6 124 42 87 45 59 14

Sequence


Ensembl Acc Id: ENSRNOT00000071655   ⟹   ENSRNOP00000066373
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1954,103,120 - 54,372,839 (+)Ensembl
Rnor_6.0 Ensembl1959,186,673 - 59,304,832 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000097403   ⟹   ENSRNOP00000097871
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1954,103,627 - 54,372,839 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000103419   ⟹   ENSRNOP00000097395
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1954,269,690 - 54,372,839 (+)Ensembl
RefSeq Acc Id: XM_017601462   ⟹   XP_017456951
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81971,000,144 - 71,270,829 (+)NCBI
mRatBN7.21954,102,811 - 54,371,765 (+)NCBI
Rnor_6.01958,968,849 - 59,305,300 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039098216   ⟹   XP_038954144
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81971,167,012 - 71,270,829 (+)NCBI
mRatBN7.21954,269,670 - 54,371,765 (+)NCBI
RefSeq Acc Id: XM_063278873   ⟹   XP_063134943
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81971,000,540 - 71,270,829 (+)NCBI
RefSeq Acc Id: XM_063278874   ⟹   XP_063134944
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81971,000,170 - 71,270,829 (+)NCBI
RefSeq Acc Id: XP_017456951   ⟸   XM_017601462
- Peptide Label: isoform X1
- Sequence:
Ensembl Acc Id: ENSRNOP00000066373   ⟸   ENSRNOT00000071655
RefSeq Acc Id: XP_038954144   ⟸   XM_039098216
- Peptide Label: isoform X3
Ensembl Acc Id: ENSRNOP00000097395   ⟸   ENSRNOT00000103419
Ensembl Acc Id: ENSRNOP00000097871   ⟸   ENSRNOT00000097403
RefSeq Acc Id: XP_063134944   ⟸   XM_063278874
- Peptide Label: isoform X4
- UniProtKB: A0A8I6ATI2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063134943   ⟸   XM_063278873
- Peptide Label: isoform X2
Protein Domains
EamA

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0RA35-F1-model_v2 AlphaFold M0RA35 1-396 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1589548 AgrOrtholog
BioCyc Gene G2FUF-5180 BioCyc
Ensembl Genes ENSRNOG00000049456 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000071655.3 UniProtKB/TrEMBL
  ENSRNOT00000097403.1 UniProtKB/TrEMBL
  ENSRNOT00000103419.1 UniProtKB/TrEMBL
InterPro EamA_dom UniProtKB/TrEMBL
  Solute_c_fam_35_mem_F3/F4 UniProtKB/TrEMBL
KEGG Report rno:679321 UniProtKB/TrEMBL
NCBI Gene 679321 ENTREZGENE
PANTHER PTHR19346 UniProtKB/TrEMBL
  THIAMINE TRANSPORTER SLC35F3-RELATED UniProtKB/TrEMBL
Pfam EamA UniProtKB/TrEMBL
PhenoGen Slc35f3 PhenoGen
RatGTEx ENSRNOG00000049456 RatGTEx
Superfamily-SCOP Multidrug resistance efflux transporter EmrE UniProtKB/TrEMBL
UniProt A0A8I6ASV5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6ATI2 ENTREZGENE, UniProtKB/TrEMBL
  A6KJ46_RAT UniProtKB/TrEMBL
  M0RA35 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-08-09 Slc35f3  solute carrier family 35, member F3  LOC679321  similar to solute carrier family 35, member F3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC679321  similar to solute carrier family 35, member F3      Symbol and Name status set to provisional 70820 PROVISIONAL