Tm7sf3 (transmembrane 7 superfamily member 3) - Rat Genome Database

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Gene: Tm7sf3 (transmembrane 7 superfamily member 3) Rattus norvegicus
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Symbol: Tm7sf3
Name: transmembrane 7 superfamily member 3
RGD ID: 1306752
Description: Predicted to be involved in cellular response to unfolded protein; negative regulation of programmed cell death; and positive regulation of insulin secretion. Predicted to be located in membrane. Predicted to be active in plasma membrane. Orthologous to human TM7SF3 (transmembrane 7 superfamily member 3); INTERACTS WITH 2,2',4,4'-Tetrabromodiphenyl ether; bisphenol A; cadmium dichloride.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC297725; MGC109599
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84181,248,819 - 181,280,844 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl4181,248,822 - 181,280,844 (-)EnsemblGRCr8
mRatBN7.24179,518,127 - 179,550,154 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4179,518,130 - 179,550,154 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx4185,803,652 - 185,835,494 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04181,588,173 - 181,620,014 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04180,208,591 - 180,240,432 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.04180,913,703 - 180,951,564 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4180,913,706 - 180,951,564 (-)Ensemblrn6Rnor6.0
Rnor_5.04245,073,410 - 245,110,560 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.44184,180,210 - 184,212,869 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera4168,014,719 - 168,046,584 (-)NCBICelera
RGSC_v3.14184,425,335 - 184,457,993 (-)NCBI
Cytogenetic Map4q44NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytosol  (IEA,ISO)
membrane  (IEA)
nucleoplasm  (IEA,ISO)
plasma membrane  (IBA,IEA,ISO,ISS)

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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10828615   PMID:12477932   PMID:15489334   PMID:19056867   PMID:21853325   PMID:27740623  


Genomics

Comparative Map Data
Tm7sf3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84181,248,819 - 181,280,844 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl4181,248,822 - 181,280,844 (-)EnsemblGRCr8
mRatBN7.24179,518,127 - 179,550,154 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4179,518,130 - 179,550,154 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx4185,803,652 - 185,835,494 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04181,588,173 - 181,620,014 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04180,208,591 - 180,240,432 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.04180,913,703 - 180,951,564 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4180,913,706 - 180,951,564 (-)Ensemblrn6Rnor6.0
Rnor_5.04245,073,410 - 245,110,560 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.44184,180,210 - 184,212,869 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera4168,014,719 - 168,046,584 (-)NCBICelera
RGSC_v3.14184,425,335 - 184,457,993 (-)NCBI
Cytogenetic Map4q44NCBI
TM7SF3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381226,971,579 - 27,014,384 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1226,971,579 - 27,014,507 (-)Ensemblhg38GRCh38
GRCh371227,124,512 - 27,167,317 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361227,017,390 - 27,058,405 (-)NCBIBuild 36Build 36hg18NCBI36
Build 341227,017,389 - 27,058,405NCBI
Celera1232,270,664 - 32,313,491 (-)NCBICelera
Cytogenetic Map12p11.23NCBI
HuRef1226,894,572 - 26,937,397 (-)NCBIHuRef
CHM1_11227,089,555 - 27,132,353 (-)NCBICHM1_1
T2T-CHM13v2.01226,843,586 - 26,886,386 (-)NCBIT2T-CHM13v2.0
Tm7sf3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396146,503,774 - 146,536,103 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl6146,503,850 - 146,544,322 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm386146,602,276 - 146,634,605 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6146,602,352 - 146,642,824 (-)Ensemblmm10GRCm38
MGSCv376146,550,798 - 146,583,114 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv366146,560,774 - 146,591,710 (-)NCBIMGSCv36mm8
Celera6149,654,685 - 149,686,318 (-)NCBICelera
Cytogenetic Map6G3NCBI
cM Map677.7NCBI
Tm7sf3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541321,844,333 - 21,890,449 (-)Ensembl
ChiLan1.0NW_00495541321,847,695 - 21,890,449 (-)NCBIChiLan1.0ChiLan1.0
TM7SF3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21069,801,352 - 69,843,920 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11269,797,805 - 69,838,229 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01259,298,725 - 59,340,896 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11261,913,370 - 61,955,547 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1261,913,370 - 61,955,540 (+)EnsemblpanPan2panpan1.1
TM7SF3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12720,615,054 - 20,665,596 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2720,627,120 - 20,664,089 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2725,722,877 - 25,773,395 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02720,810,022 - 20,860,318 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2720,822,517 - 20,860,186 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12720,620,956 - 20,671,207 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02720,643,189 - 20,693,494 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02725,885,763 - 25,923,519 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Tm7sf3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494582,553,901 - 82,591,804 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936548476,574 - 516,692 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936548476,785 - 514,490 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TM7SF3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl546,740,949 - 46,784,194 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1546,740,936 - 46,784,195 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2550,292,383 - 50,334,707 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TM7SF3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11126,723,505 - 26,764,951 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1126,723,834 - 26,764,877 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660698,302,899 - 8,352,404 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tm7sf3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475212,185,548 - 12,223,479 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462475212,185,913 - 12,223,002 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Tm7sf3
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v164,280,261 - 4,311,571 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Tm7sf3
198 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:178
Count of miRNA genes:138
Interacting mature miRNAs:150
Transcripts:ENSRNOT00000002486
Prediction methods:Microtar, Miranda, Rnahybrid
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
6478754Anxrr43Anxiety related response QTL 430.14035locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4146370897184426481Rat
6478720Alc23Alcohol consumption QTL 230.00509drinking behavior trait (VT:0001422)ethanol drink intake rate to body weight ratio (CMO:0001616)4155834926184426481Rat
6478785Anxrr53Anxiety related response QTL 530.01397locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
1581566Eae21Experimental allergic encephalomyelitis QTL 216.2body mass (VT:0001259)maximum body weight loss to initial body weight ratio (CMO:0001400)4137447185182447185Rat
6478693Anxrr32Anxiety related response QTL 320.00092locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4146370897184426481Rat
6478757Anxrr44Anxiety related response QTL 440.01087locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
1578674Bmd12Bone mineral density QTL 123.8femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)4137430611182430611Rat
6478728Anxrr36Anxiety related response QTL 360.01061locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)460916264184426481Rat
6478700Anxrr33Anxiety related response QTL 330.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4146370897184426481Rat
1298524Oia8Oil induced arthritis QTL 8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4140059299184426481Rat
6478733Anxrr37Anxiety related response QTL 370.00095locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
10053718Scort25Serum corticosterone level QTL 252.150.0097blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)4157292416184426481Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)460916264184426481Rat
61362Oia2Oil induced arthritis QTL 20.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4140059299184426481Rat
6478737Anxrr38Anxiety related response QTL 380.00159locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
2293659Bmd35Bone mineral density QTL 354.50.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)4160623982184426481Rat
10401796Kidm48Kidney mass QTL 48kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)4147299608184426481Rat
6478718Anxrr34Anxiety related response QTL 340.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4146370897184426481Rat
6478782Anxrr52Anxiety related response QTL 520.02091locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)412212457182430611Rat
6478748Anxrr42Anxiety related response QTL 420.28008locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4146370897184426481Rat
1300109Rf13Renal function QTL 133.91renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)4176806581181925369Rat

Markers in Region
RH139423  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24179,518,117 - 179,518,285 (+)MAPPERmRatBN7.2
Rnor_6.04180,913,694 - 180,913,861NCBIRnor6.0
Rnor_5.04245,073,401 - 245,073,568UniSTSRnor5.0
RGSC_v3.44184,180,201 - 184,180,368UniSTSRGSC3.4
Celera4168,014,710 - 168,014,877UniSTS
RH 3.4 Map41067.4UniSTS
Cytogenetic Map4q44UniSTS


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
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 161 91 90 59 92 59 6 356 192 11 140 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000002486   ⟹   ENSRNOP00000002486
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4181,248,822 - 181,280,844 (-)Ensembl
mRatBN7.2 Ensembl4179,518,130 - 179,550,154 (-)Ensembl
Rnor_6.0 Ensembl4180,913,706 - 180,951,564 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000096814   ⟹   ENSRNOP00000081369
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4179,518,130 - 179,541,346 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000118067   ⟹   ENSRNOP00000086768
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4181,248,822 - 181,271,924 (-)Ensembl
mRatBN7.2 Ensembl4179,518,130 - 179,541,231 (-)Ensembl
RefSeq Acc Id: NM_001011970   ⟹   NP_001011970
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84181,248,819 - 181,280,844 (-)NCBI
mRatBN7.24179,518,127 - 179,550,154 (-)NCBI
Rnor_6.04180,913,703 - 180,951,564 (-)NCBI
Rnor_5.04245,073,410 - 245,110,560 (-)NCBI
RGSC_v3.44184,180,210 - 184,212,869 (-)RGD
Celera4168,014,719 - 168,046,584 (-)RGD
Sequence:
RefSeq Acc Id: XM_063285919   ⟹   XP_063141989
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84181,248,819 - 181,271,541 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001011970 (Get FASTA)   NCBI Sequence Viewer  
  XP_063141989 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH90030 (Get FASTA)   NCBI Sequence Viewer  
  EDM01412 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000002486
  ENSRNOP00000002486.5
GenBank Protein Q5FVF4 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001011970   ⟸   NM_001011970
- Peptide Label: precursor
- UniProtKB: Q5FVF4 (UniProtKB/Swiss-Prot),   A6IN26 (UniProtKB/TrEMBL),   A0A8I6A4C6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000002486   ⟸   ENSRNOT00000002486
Ensembl Acc Id: ENSRNOP00000081369   ⟸   ENSRNOT00000096814
Ensembl Acc Id: ENSRNOP00000086768   ⟸   ENSRNOT00000118067
RefSeq Acc Id: XP_063141989   ⟸   XM_063285919
- Peptide Label: isoform X1
Protein Domains
TM7S3/TM198-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5FVF4-F1-model_v2 AlphaFold Q5FVF4 1-565 view protein structure

Transcriptome

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

Promoters
RGD ID:13693505
Promoter ID:EPDNEW_R4028
Type:multiple initiation site
Name:Tm7sf3_1
Description:transmembrane 7 superfamily member 3
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.04180,951,563 - 180,951,623EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306752 AgrOrtholog
BioCyc Gene G2FUF-42427 BioCyc
Ensembl Genes ENSRNOG00000001817 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000002486 ENTREZGENE
  ENSRNOT00000002486.6 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7366240 IMAGE-MGC_LOAD
InterPro DUF4203 UniProtKB/Swiss-Prot
  TM7SF3 UniProtKB/Swiss-Prot
KEGG Report rno:297725 UniProtKB/Swiss-Prot
MGC_CLONE MGC:109599 IMAGE-MGC_LOAD
NCBI Gene 297725 ENTREZGENE
PANTHER PTHR15937 UniProtKB/Swiss-Prot
  TRANSMEMBRANE 7 SUPERFAMILY MEMBER 3 UniProtKB/Swiss-Prot
Pfam DUF4203 UniProtKB/Swiss-Prot
PhenoGen Tm7sf3 PhenoGen
RatGTEx ENSRNOG00000001817 RatGTEx
UniProt A0A8I6A4C6 ENTREZGENE, UniProtKB/TrEMBL
  A6IN26 ENTREZGENE, UniProtKB/TrEMBL
  Q5FVF4 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-12-06 Tm7sf3  transmembrane 7 superfamily member 3  Tm7sf3_predicted  transmembrane 7 superfamily member 3 (predicted)  Symbol and Name updated 1559027 APPROVED