Tmem247 (transmembrane protein 247) - Rat Genome Database

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Gene: Tmem247 (transmembrane protein 247) Rattus norvegicus
Analyze
Symbol: Tmem247
Name: transmembrane protein 247
RGD ID: 1588160
Description: Predicted to be located in membrane. Predicted to be active in endoplasmic reticulum. Orthologous to human TMEM247 (transmembrane protein 247); INTERACTS WITH bisphenol A; N-methyl-4-phenylpyridinium; 2-palmitoylglycerol (ortholog).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hypothetical protein LOC682006; LOC682006
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8613,449,515 - 13,454,462 (-)NCBIGRCr8
mRatBN7.267,696,517 - 7,701,464 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl67,696,512 - 7,701,464 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx67,975,057 - 7,980,024 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.068,284,470 - 8,289,437 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.067,811,592 - 7,816,559 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0610,483,308 - 10,488,255 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl610,483,308 - 10,488,253 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0620,472,330 - 20,477,277 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera67,431,529 - 7,436,476 (-)NCBICelera
Cytogenetic Map6q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:17662146  


Genomics

Comparative Map Data
Tmem247
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8613,449,515 - 13,454,462 (-)NCBIGRCr8
mRatBN7.267,696,517 - 7,701,464 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl67,696,512 - 7,701,464 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx67,975,057 - 7,980,024 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.068,284,470 - 8,289,437 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.067,811,592 - 7,816,559 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0610,483,308 - 10,488,255 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl610,483,308 - 10,488,253 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0620,472,330 - 20,477,277 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera67,431,529 - 7,436,476 (-)NCBICelera
Cytogenetic Map6q12NCBI
TMEM247
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38246,479,565 - 46,484,425 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl246,479,565 - 46,484,425 (+)EnsemblGRCh38hg38GRCh38
GRCh37246,706,704 - 46,711,564 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36246,539,968 - 46,572,085 (+)NCBINCBI36Build 36hg18NCBI36
Celera246,545,389 - 46,550,250 (+)NCBICelera
Cytogenetic Map2p21ENTREZGENE
HuRef246,444,265 - 46,449,164 (+)ENTREZGENEHuRef
CHM1_1246,637,071 - 46,641,931 (+)NCBICHM1_1
T2T-CHM13v2.0246,484,583 - 46,489,482 (+)NCBIT2T-CHM13v2.0
Tmem247
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391787,224,776 - 87,229,795 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1787,224,776 - 87,229,802 (+)EnsemblGRCm39 Ensembl
GRCm381786,917,348 - 86,922,367 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1786,917,348 - 86,922,374 (+)EnsemblGRCm38mm10GRCm38
MGSCv371787,316,688 - 87,321,708 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361786,824,745 - 86,830,808 (+)NCBIMGSCv36mm8
Celera1791,303,644 - 91,308,661 (+)NCBICelera
Cytogenetic Map17E4NCBI
cM Map1756.9NCBI
Tmem247
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495544113,404,855 - 13,409,919 (+)NCBIChiLan1.0ChiLan1.0
TMEM247
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21279,905,727 - 79,910,796 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A79,909,695 - 79,914,764 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A46,595,036 - 46,600,085 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A47,526,303 - 47,534,971 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A47,526,365 - 47,531,213 (+)Ensemblpanpan1.1panPan2
TMEM247
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11048,713,464 - 48,719,825 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1048,713,535 - 48,720,810 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1048,567,967 - 48,574,097 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01049,584,575 - 49,590,708 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1049,584,647 - 49,590,780 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11049,292,713 - 49,298,841 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01049,583,009 - 49,593,801 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01049,765,925 - 49,776,722 (+)NCBIUU_Cfam_GSD_1.0
Tmem247
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629234,332,665 - 34,354,278 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365085,778,529 - 5,782,802 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365085,761,274 - 5,782,802 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TMEM247
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl394,061,835 - 94,066,606 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1394,061,977 - 94,067,024 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.23100,146,679 - 100,151,704 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TMEM247
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11460,725,734 - 60,778,635 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1460,726,251 - 60,731,335 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604551,123,370 - 51,143,960 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tmem247
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473827,949,133 - 27,966,461 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:75
Count of miRNA genes:63
Interacting mature miRNAs:65
Transcripts:ENSRNOT00000074516
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
8552962Pigfal16Plasma insulin-like growth factor 1 level QTL 169.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)6197587946975879Rat
7411603Foco13Food consumption QTL 135.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6197587946975879Rat
1598843Cm63Cardiac mass QTL 632.6heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)6144788383Rat
7411542Bw127Body weight QTL 1275.50.001body mass (VT:0001259)body weight gain (CMO:0000420)6197587946975879Rat
2293706Bmd20Bone mineral density QTL 204.30.0002femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)6125740059Rat
2292616Ept15Estrogen-induced pituitary tumorigenesis QTL 154.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)6144788383Rat
9589048Scfw3Subcutaneous fat weight QTL 34.570.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)6197587946975879Rat
2301964Bp323Blood pressure QTL 3234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)6186868070Rat
2293709Bss23Bone structure and strength QTL 235.180.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)6323998948239989Rat
2293650Bss31Bone structure and strength QTL 315.050.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)6323998948239989Rat
1300128Rf16Renal function QTL 163.89renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)6140163351Rat
70196BpQTLcluster7Blood pressure QTL cluster 76.82arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)6120510098Rat
1300164Rf15Renal function QTL 153.12renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)6323998948239989Rat
1358190Ept1Estrogen-induced pituitary tumorigenesis QTL 14.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)6144788383Rat
2293656Bss28Bone structure and strength QTL 286.790.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)6323998948239989Rat
9589129Insul24Insulin level QTL 2419.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)6197587946975879Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
3 4 1 22 21 17 8 8 8 30 15 18 2 34 9

Sequence


Ensembl Acc Id: ENSRNOT00000074516   ⟹   ENSRNOP00000065990
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl67,696,512 - 7,701,464 (-)Ensembl
Rnor_6.0 Ensembl610,483,308 - 10,488,253 (+)Ensembl
RefSeq Acc Id: NM_001277885   ⟹   NP_001264814
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8613,449,515 - 13,454,462 (-)NCBI
mRatBN7.267,696,517 - 7,701,464 (-)NCBI
Rnor_6.0610,483,308 - 10,488,255 (+)NCBI
Rnor_5.0620,472,330 - 20,477,277 (+)NCBI
Celera67,431,529 - 7,436,476 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001264814 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM02659 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000065990.2
RefSeq Acc Id: NP_001264814   ⟸   NM_001277885
- UniProtKB: M0R929 (UniProtKB/TrEMBL),   A6H9F4 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000065990   ⟸   ENSRNOT00000074516

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R929-F1-model_v2 AlphaFold M0R929 1-208 view protein structure

Transcriptome

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

Promoters
RGD ID:13694386
Promoter ID:EPDNEW_R4911
Type:initiation region
Name:Tmem247_1
Description:transmembrane protein 247
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_6.0610,483,372 - 10,483,432EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1588160 AgrOrtholog
BioCyc Gene G2FUF-38707 BioCyc
Ensembl Genes ENSRNOG00000046926 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000074516.3 UniProtKB/TrEMBL
InterPro TMEM247 UniProtKB/TrEMBL
KEGG Report rno:682006 UniProtKB/TrEMBL
NCBI Gene 682006 ENTREZGENE
PANTHER PTHR36691 UniProtKB/TrEMBL
  TRANSMEMBRANE PROTEIN 247 UniProtKB/TrEMBL
Pfam TMEM247 UniProtKB/TrEMBL
PhenoGen Tmem247 PhenoGen
RatGTEx ENSRNOG00000046926 RatGTEx
UniProt A6H9F4 ENTREZGENE, UniProtKB/TrEMBL
  M0R929 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-08-13 Tmem247  transmembrane protein 247  LOC682006  hypothetical protein LOC682006  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC682006  hypothetical protein LOC682006      Symbol and Name status set to provisional 70820 PROVISIONAL