Tmem253 (transmembrane protein 253) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Tmem253 (transmembrane protein 253) Mus musculus
Analyze
Symbol: Tmem253
Name: transmembrane protein 253
RGD ID: 1619576
MGI Page MGI
Description: Predicted to be located in membrane. Orthologous to human TMEM253 (transmembrane protein 253).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: G630016D24Rik; tranmembrane protein 253; transmembrane protein C14orf176 homolog
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
GRCm391452,252,309 - 52,257,244 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1452,253,115 - 52,257,251 (+)EnsemblGRCm39 Ensembl
GRCm381452,014,852 - 52,019,787 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1452,015,658 - 52,019,794 (+)EnsemblGRCm38mm10GRCm38
MGSCv371452,636,540 - 52,639,462 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361450,938,816 - 50,941,740 (+)NCBIMGSCv36mm8
Celera1448,996,770 - 48,999,666 (+)NCBICelera
Cytogenetic Map14C2NCBI
cM Map1426.77NCBI
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

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:14610273   PMID:16141072   PMID:16141073   PMID:21677750  


Genomics

Comparative Map Data
Tmem253
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391452,252,309 - 52,257,244 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1452,253,115 - 52,257,251 (+)EnsemblGRCm39 Ensembl
GRCm381452,014,852 - 52,019,787 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1452,015,658 - 52,019,794 (+)EnsemblGRCm38mm10GRCm38
MGSCv371452,636,540 - 52,639,462 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361450,938,816 - 50,941,740 (+)NCBIMGSCv36mm8
Celera1448,996,770 - 48,999,666 (+)NCBICelera
Cytogenetic Map14C2NCBI
cM Map1426.77NCBI
TMEM253
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381421,098,836 - 21,103,724 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1421,098,811 - 21,103,724 (+)EnsemblGRCh38hg38GRCh38
GRCh371421,566,995 - 21,571,883 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361420,639,343 - 20,641,723 (+)NCBINCBI36Build 36hg18NCBI36
Celera141,427,654 - 1,432,447 (+)NCBICelera
Cytogenetic Map14q11.2NCBI
HuRef141,687,284 - 1,692,081 (+)NCBIHuRef
CHM1_11421,568,829 - 21,573,619 (+)NCBICHM1_1
T2T-CHM13v2.01415,296,249 - 15,301,137 (+)NCBIT2T-CHM13v2.0
Tmem253
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81527,180,029 - 27,182,607 (+)NCBIGRCr8
mRatBN7.21524,706,517 - 24,709,107 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1524,706,529 - 24,708,625 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.01528,413,414 - 28,416,039 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1528,413,461 - 28,415,554 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01532,221,865 - 32,226,503 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41527,445,186 - 27,447,282 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1525,011,020 - 25,013,645 (+)NCBICelera
Cytogenetic Map15p14NCBI
Tmem253
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555501,862,719 - 1,866,822 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555501,862,781 - 1,867,230 (+)NCBIChiLan1.0ChiLan1.0
TMEM253
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21522,550,226 - 22,554,472 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11421,766,747 - 21,770,959 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0141,913,655 - 1,917,874 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
TMEM253
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11518,187,622 - 18,194,700 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1518,187,616 - 18,193,427 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1518,671,660 - 18,685,505 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01518,447,013 - 18,460,567 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1518,450,237 - 18,452,076 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11518,128,293 - 18,142,133 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01518,184,255 - 18,198,096 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01518,312,210 - 18,326,061 (+)NCBIUU_Cfam_GSD_1.0
Tmem253
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864032,393,443 - 32,398,684 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936880304,740 - 306,616 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936880302,889 - 307,007 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TMEM253
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl778,030,446 - 78,032,537 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1777,991,665 - 78,033,146 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
TMEM253
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12921,573,831 - 21,577,932 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2921,574,780 - 21,576,691 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605924,858,547 - 24,860,919 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tmem253
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248257,095,542 - 7,097,636 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248257,093,627 - 7,098,746 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Tmem253
156 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:301
Count of miRNA genes:212
Interacting mature miRNAs:228
Transcripts:ENSMUST00000100638
Prediction methods: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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357589Kdnw2_mkidney weight 2 (mouse)Not determined1420887473121269804Mouse
1300625Cosz2_mcocaine seizure 2 (mouse)Not determined143504579768785736Mouse
1301777Bglq15_mbody growth late QTL 15 (mouse)Not determined144296241676962593Mouse
1357527Epfpq1_mepididymal fat percentage QTL 1 (mouse)Not determined142106245071885801Mouse
1301424Skull21_mskull morphology 21 (mouse)Not determined144296241676962593Mouse
27226744Metcl6_mmetatarsal-calcaneal length 6, 5 week (mouse)143032195752937457Mouse
4141400Nilac8_mnicotine induced locomotor activity 8 (mouse)Not determined144306584777066045Mouse
27226774Tibl15_mtibia length 15, 10 week (mouse)143032195787937436Mouse
4142485Modor2_mmodifier of ocular retardation 2 (mouse)Not determined142492624858179769Mouse
4142419Tgq26_mtriglyceride QTL 26 (mouse)Not determined4033731974337319Mouse
27226737Metcl12_mmetatarsal-calcaneal length 12, 10 week (mouse)143322195759437449Mouse
1300605El5_mepilepsy 5 (mouse)Not determined144945542583455556Mouse
1301372Sluc13_msusceptibility to lung cancer 13 (mouse)Not determined141882760452827726Mouse
1301091Bbaa21_mB.burgdorferi-associated arthritis 21 (mouse)Not determined144306584777066045Mouse
4141484Hcbip1_mhexachlorobenzene induced porphyria 1 (mouse)Not determined4733525059962593Mouse
1300998Cia17_mcollagen induced arthritis 17 (mouse)Not determined143033525064335381Mouse
10043887Cia50_mcollagen induced arthritis QTL 50 (mouse)Not determined143743018571430320Mouse
1300805Mors3_mmodifier of obesity related sterility 3 (mouse)Not determined144303727077037418Mouse
10043886Cia49_mcollagen induced arthritis QTL 49 (mouse)Not determined142999699463997133Mouse
27226727Tibl21_mtibia length 21, 16 week (mouse)143412195752937457Mouse
4142310Carg1_mCandida albicans resistance gene 1 (mouse)Not determined5138245954461655Mouse
14746973Manh76_mmandible shape 76 (mouse)142228721756287217Mouse
1300909Ath13_matherosclerosis 13 (mouse)Not determined143033525064335381Mouse
13506929Recrq10_mrecombination rate in male meiosis QTL 10 (mouse)142792195761137449Mouse


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000100638   ⟹   ENSMUSP00000098203
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1452,254,322 - 52,257,251 (+)Ensembl
GRCm38.p6 Ensembl1452,016,865 - 52,019,794 (+)Ensembl
Ensembl Acc Id: ENSMUST00000226268
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1452,253,115 - 52,254,398 (+)Ensembl
GRCm38.p6 Ensembl1452,015,658 - 52,016,941 (+)Ensembl
Ensembl Acc Id: ENSMUST00000227295   ⟹   ENSMUSP00000154460
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1452,254,376 - 52,256,807 (+)Ensembl
GRCm38.p6 Ensembl1452,016,919 - 52,019,350 (+)Ensembl
Ensembl Acc Id: ENSMUST00000228408   ⟹   ENSMUSP00000153729
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1452,254,351 - 52,254,879 (+)Ensembl
GRCm38.p6 Ensembl1452,016,894 - 52,017,422 (+)Ensembl
RefSeq Acc Id: NM_001033805   ⟹   NP_001028977
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391452,254,322 - 52,257,244 (+)NCBI
GRCm381452,016,865 - 52,019,787 (+)NCBI
MGSCv371452,636,540 - 52,639,462 (+)RGD
Celera1448,996,770 - 48,999,666 (+)RGD
cM Map14 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_011245128   ⟹   XP_011243430
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391452,252,309 - 52,257,232 (+)NCBI
GRCm381452,014,852 - 52,019,775 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017316105   ⟹   XP_017171594
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391452,252,725 - 52,257,232 (+)NCBI
GRCm381452,015,048 - 52,019,775 (+)NCBI
Sequence:
RefSeq Acc Id: XM_030247905   ⟹   XP_030103765
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391452,252,725 - 52,256,807 (+)NCBI
GRCm381452,016,556 - 52,019,773 (+)NCBI
Sequence:
RefSeq Acc Id: XM_036158775   ⟹   XP_036014668
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391452,254,007 - 52,257,232 (+)NCBI
Sequence:
RefSeq Acc Id: NP_001028977   ⟸   NM_001033805
- UniProtKB: Q3UNB8 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_011243430   ⟸   XM_011245128
- Peptide Label: isoform X1
- UniProtKB: Q3UNB8 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017171594   ⟸   XM_017316105
- Peptide Label: isoform X1
- UniProtKB: Q3UNB8 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_030103765   ⟸   XM_030247905
- Peptide Label: isoform X2
- UniProtKB: A0A2I3BR52 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSMUSP00000154460   ⟸   ENSMUST00000227295
Ensembl Acc Id: ENSMUSP00000098203   ⟸   ENSMUST00000100638
Ensembl Acc Id: ENSMUSP00000153729   ⟸   ENSMUST00000228408
RefSeq Acc Id: XP_036014668   ⟸   XM_036158775
- Peptide Label: isoform X1
- UniProtKB: Q3UNB8 (UniProtKB/Swiss-Prot)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q3UNB8-F1-model_v2 AlphaFold Q3UNB8 1-204 view protein structure

Promoters
RGD ID:8682178
Promoter ID:EPDNEW_M19120
Type:initiation region
Name:Tmem253_1
Description:Mus musculus transmembrane protein 253 , 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
GRCm381452,016,865 - 52,016,925EPDNEW
RGD ID:6824945
Promoter ID:MM_KWN:16619
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day4,   ES_Cell,   Kidney
Transcripts:ENSMUST00000100638
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361452,635,636 - 52,636,497 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:3588246 AgrOrtholog
Ensembl Genes ENSMUSG00000072571 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000100638 ENTREZGENE
  ENSMUST00000100638.4 UniProtKB/Swiss-Prot
  ENSMUST00000227295 ENTREZGENE
  ENSMUST00000227295.2 UniProtKB/TrEMBL
  ENSMUST00000228408.2 UniProtKB/TrEMBL
InterPro TMEM253 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:619301 UniProtKB/Swiss-Prot
MGD MGI:3588246 ENTREZGENE
NCBI Gene 619301 ENTREZGENE
PANTHER PTHR37359 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRANSMEMBRANE PROTEIN 253 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Tmem253 PhenoGen
UniProt A0A2I3BPD3_MOUSE UniProtKB/TrEMBL
  A0A2I3BR52 ENTREZGENE, UniProtKB/TrEMBL
  Q3UNB8 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-01-08 Tmem253  transmembrane protein 253    tranmembrane protein 253  Symbol and/or name change 5135510 APPROVED
2012-11-27 Tmem253  tranmembrane protein 253  G630016D24Rik  RIKEN cDNA G630016D24 gene  Symbol and/or name change 5135510 APPROVED