TMEM53 (transmembrane protein 53) - Rat Genome Database

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Gene: TMEM53 (transmembrane protein 53) Sus scrofa
Analyze
Symbol: TMEM53
Name: transmembrane protein 53
RGD ID: 13938806
Description: INVOLVED IN negative regulation of BMP signaling pathway (inferred); negative regulation of ossification (inferred); negative regulation of osteoblast differentiation (inferred); ASSOCIATED WITH Charcot-Marie-Tooth disease dominant intermediate C (ortholog); craniotubular dysplasia Ikegawa type (ortholog); developmental and epileptic encephalopathy (ortholog); FOUND IN membrane (inferred); nuclear membrane (inferred); nuclear outer membrane (inferred); INTERACTS WITH deoxynivalenol
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6166,645,098 - 166,680,654 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16166,645,103 - 166,664,382 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.26154,094,633 - 154,112,799 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

Cellular Component

References
Additional References at PubMed
PMID:14681463   PMID:17145712  


Genomics

Comparative Map Data
TMEM53
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6166,645,098 - 166,680,654 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16166,645,103 - 166,664,382 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.26154,094,633 - 154,112,799 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TMEM53
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38144,653,247 - 44,674,481 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl144,635,238 - 44,674,481 (-)EnsemblGRCh38hg38GRCh38
GRCh37145,118,919 - 45,140,153 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36144,892,088 - 44,912,686 (-)NCBINCBI36Build 36hg18NCBI36
Celera143,402,390 - 43,422,988 (-)NCBICelera
Cytogenetic Map1p34.1NCBI
HuRef143,233,694 - 43,254,292 (-)NCBIHuRef
CHM1_1145,235,410 - 45,256,009 (-)NCBICHM1_1
T2T-CHM13v2.0144,524,186 - 44,545,427 (-)NCBIT2T-CHM13v2.0
Tmem53
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394117,109,148 - 117,125,785 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4117,109,148 - 117,125,779 (+)EnsemblGRCm39 Ensembl
GRCm384117,251,951 - 117,268,588 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4117,251,951 - 117,268,582 (+)EnsemblGRCm38mm10GRCm38
MGSCv374116,924,594 - 116,941,185 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv364116,749,921 - 116,766,512 (+)NCBIMGSCv36mm8
Celera4115,981,969 - 115,998,698 (+)NCBICelera
Cytogenetic Map4D1NCBI
cM Map453.43NCBI
Tmem53
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85135,958,344 - 135,974,258 (+)NCBIGRCr8
mRatBN7.25130,721,780 - 130,737,692 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5130,721,659 - 130,737,692 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5133,345,225 - 133,360,784 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05135,099,823 - 135,115,382 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05135,122,252 - 135,137,811 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05136,112,417 - 136,127,976 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5136,112,417 - 136,127,976 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05139,905,905 - 139,921,464 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45137,559,894 - 137,575,740 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15137,565,154 - 137,580,579 (+)NCBI
Celera5129,243,073 - 129,258,614 (+)NCBICelera
Cytogenetic Map5q36NCBI
Tmem53
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495546413,552,922 - 13,577,528 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495546413,552,963 - 13,577,528 (+)NCBIChiLan1.0ChiLan1.0
TMEM53
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21182,134,506 - 182,157,787 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11181,275,852 - 181,299,184 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0143,955,734 - 43,977,107 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1145,322,209 - 45,343,326 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl145,305,359 - 45,343,109 (-)Ensemblpanpan1.1panPan2
TMEM53
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11515,640,232 - 15,661,829 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1515,640,342 - 15,678,994 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1515,760,354 - 15,781,933 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01515,791,873 - 15,813,549 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1515,791,913 - 15,830,728 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11515,592,995 - 15,614,578 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01515,660,073 - 15,681,673 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01515,733,773 - 15,755,366 (+)NCBIUU_Cfam_GSD_1.0
Tmem53
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505860,071,166 - 60,090,112 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647425,896,980 - 25,914,963 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647425,897,032 - 25,914,873 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TMEM53
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12088,111,228 - 88,131,952 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2088,111,231 - 88,134,124 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603328,790,922 - 28,812,672 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tmem53
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624906544,485 - 580,001 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624906528,595 - 579,894 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in TMEM53
627 total Variants

Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium
Low 9 4 3 5 2 23 2 3 3
Below cutoff 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000030222   ⟹   ENSSSCP00000020764
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl6166,645,237 - 166,664,376 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000079203   ⟹   ENSSSCP00000074254
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl6166,645,280 - 166,664,385 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000083426   ⟹   ENSSSCP00000065214
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl6166,645,098 - 166,680,654 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000088259   ⟹   ENSSSCP00000063939
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl6166,662,554 - 166,666,705 (+)Ensembl
RefSeq Acc Id: XM_003482099   ⟹   XP_003482147
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.16166,645,103 - 166,664,382 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021096785   ⟹   XP_020952444
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.16166,645,223 - 166,664,382 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_003482147   ⟸   XM_003482099
- Peptide Label: isoform X1
- UniProtKB: A0A4X1W9T2 (UniProtKB/TrEMBL),   A0A5G2RAB0 (UniProtKB/TrEMBL),   A0A4X1W3W7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020952444   ⟸   XM_021096785
- Peptide Label: isoform X2
- UniProtKB: A0A8D0WBM7 (UniProtKB/TrEMBL),   F1S333 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000063939   ⟸   ENSSSCT00000088259
RefSeq Acc Id: ENSSSCP00000065214   ⟸   ENSSSCT00000083426
RefSeq Acc Id: ENSSSCP00000020764   ⟸   ENSSSCT00000030222
RefSeq Acc Id: ENSSSCP00000074254   ⟸   ENSSSCT00000079203


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000027423 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005038738 UniProtKB/TrEMBL
  ENSSSCG00015026911 UniProtKB/TrEMBL
  ENSSSCG00025075462 UniProtKB/TrEMBL
  ENSSSCG00030027646 UniProtKB/TrEMBL
  ENSSSCG00035029931 UniProtKB/TrEMBL
  ENSSSCG00040048267 UniProtKB/TrEMBL
  ENSSSCG00045029316 UniProtKB/TrEMBL
  ENSSSCG00050073799 UniProtKB/TrEMBL
  ENSSSCG00055004625 UniProtKB/TrEMBL
  ENSSSCG00060074895 UniProtKB/TrEMBL
  ENSSSCG00065050710 UniProtKB/TrEMBL
  ENSSSCG00070029772 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000030222 ENTREZGENE
  ENSSSCT00000030222.4 UniProtKB/TrEMBL
  ENSSSCT00000079203 ENTREZGENE
  ENSSSCT00000079203.2 UniProtKB/TrEMBL
  ENSSSCT00000083426.1 UniProtKB/TrEMBL
  ENSSSCT00005062123.1 UniProtKB/TrEMBL
  ENSSSCT00005062194.1 UniProtKB/TrEMBL
  ENSSSCT00015035735.1 UniProtKB/TrEMBL
  ENSSSCT00015035777.1 UniProtKB/TrEMBL
  ENSSSCT00025104094.1 UniProtKB/TrEMBL
  ENSSSCT00025104130.1 UniProtKB/TrEMBL
  ENSSSCT00025104174.1 UniProtKB/TrEMBL
  ENSSSCT00030038644.1 UniProtKB/TrEMBL
  ENSSSCT00030038656.1 UniProtKB/TrEMBL
  ENSSSCT00030038662.1 UniProtKB/TrEMBL
  ENSSSCT00035039655.1 UniProtKB/TrEMBL
  ENSSSCT00035039656.1 UniProtKB/TrEMBL
  ENSSSCT00035039662.1 UniProtKB/TrEMBL
  ENSSSCT00040065021.1 UniProtKB/TrEMBL
  ENSSSCT00040065103.1 UniProtKB/TrEMBL
  ENSSSCT00040065211.1 UniProtKB/TrEMBL
  ENSSSCT00045049995.1 UniProtKB/TrEMBL
  ENSSSCT00045050191.1 UniProtKB/TrEMBL
  ENSSSCT00045050259.1 UniProtKB/TrEMBL
  ENSSSCT00050100965.1 UniProtKB/TrEMBL
  ENSSSCT00050100969.1 UniProtKB/TrEMBL
  ENSSSCT00050100975.1 UniProtKB/TrEMBL
  ENSSSCT00055009119.1 UniProtKB/TrEMBL
  ENSSSCT00055009122.1 UniProtKB/TrEMBL
  ENSSSCT00055009125.1 UniProtKB/TrEMBL
  ENSSSCT00060102493.1 UniProtKB/TrEMBL
  ENSSSCT00060102533.1 UniProtKB/TrEMBL
  ENSSSCT00060102586.1 UniProtKB/TrEMBL
  ENSSSCT00065069452.1 UniProtKB/TrEMBL
  ENSSSCT00065069458.1 UniProtKB/TrEMBL
  ENSSSCT00065069461.1 UniProtKB/TrEMBL
  ENSSSCT00070059860.1 UniProtKB/TrEMBL
  ENSSSCT00070059862.1 UniProtKB/TrEMBL
  ENSSSCT00070059863.1 UniProtKB/TrEMBL
InterPro AB_hydrolase UniProtKB/TrEMBL
  DUF829_TMEM53 UniProtKB/TrEMBL
KEGG Report ssc:100739435 UniProtKB/TrEMBL
NCBI Gene TMEM53 ENTREZGENE
PANTHER PTHR12265 UniProtKB/TrEMBL
  TRANSMEMBRANE PROTEIN 53 UniProtKB/TrEMBL
Pfam DUF829 UniProtKB/TrEMBL
Superfamily-SCOP SSF53474 UniProtKB/TrEMBL
UniProt A0A4X1W3W7 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1W9T2 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1WAY0_PIG UniProtKB/TrEMBL
  A0A5G2RAB0 ENTREZGENE
  A0A8D0WBM7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1KDI5_PIG UniProtKB/TrEMBL
  F1S333 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary A0A5G2QT91 UniProtKB/TrEMBL
  A0A5G2RAB0 UniProtKB/TrEMBL
VGNC ID VGNC:94190 ENTREZGENE