Tmem253 (transmembrane protein 253) - Rat Genome Database

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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 Genes
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
1301372Sluc13_msusceptibility to lung cancer 13 (mouse)Not determined141882760452827726Mouse
1357589Kdnw2_mkidney weight 2 (mouse)Not determined1420887473121269804Mouse
1357527Epfpq1_mepididymal fat percentage QTL 1 (mouse)Not determined142106245071885801Mouse
14746973Manh76_mmandible shape 76 (mouse)142228721756287217Mouse
4142485Modor2_mmodifier of ocular retardation 2 (mouse)Not determined142492624858179769Mouse
13506929Recrq10_mrecombination rate in male meiosis QTL 10 (mouse)142792195761137449Mouse
10043886Cia49_mcollagen induced arthritis QTL 49 (mouse)Not determined142999699463997133Mouse
27226744Metcl6_mmetatarsal-calcaneal length 6, 5 week (mouse)143032195752937457Mouse
27226774Tibl15_mtibia length 15, 10 week (mouse)143032195787937436Mouse
1300909Ath13_matherosclerosis 13 (mouse)Not determined143033525064335381Mouse
1300998Cia17_mcollagen induced arthritis 17 (mouse)Not determined143033525064335381Mouse
27226737Metcl12_mmetatarsal-calcaneal length 12, 10 week (mouse)143322195759437449Mouse
27226727Tibl21_mtibia length 21, 16 week (mouse)143412195752937457Mouse
1300625Cosz2_mcocaine seizure 2 (mouse)Not determined143504579768785736Mouse
10043887Cia50_mcollagen induced arthritis QTL 50 (mouse)Not determined143743018571430320Mouse
4142419Tgq26_mtriglyceride QTL 26 (mouse)Not determined4033731974337319Mouse
1301777Bglq15_mbody growth late QTL 15 (mouse)Not determined144296241676962593Mouse
1301424Skull21_mskull morphology 21 (mouse)Not determined144296241676962593Mouse
1300805Mors3_mmodifier of obesity related sterility 3 (mouse)Not determined144303727077037418Mouse
1301091Bbaa21_mB.burgdorferi-associated arthritis 21 (mouse)Not determined144306584777066045Mouse
4141400Nilac8_mnicotine induced locomotor activity 8 (mouse)Not determined144306584777066045Mouse
4141484Hcbip1_mhexachlorobenzene induced porphyria 1 (mouse)Not determined4733525059962593Mouse
1300605El5_mepilepsy 5 (mouse)Not determined144945542583455556Mouse
4142310Carg1_mCandida albicans resistance gene 1 (mouse)Not determined5138245954461655Mouse


Expression


Sequence


Reference Sequences
RefSeq 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
RefSeq 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
RefSeq 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
RefSeq 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:
Reference Protein Sequences
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)
RefSeq Acc Id: ENSMUSP00000154460   ⟸   ENSMUST00000227295
RefSeq Acc Id: ENSMUSP00000098203   ⟸   ENSMUST00000100638
RefSeq 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