TMEM50B (transmembrane protein 50B) - Rat Genome Database

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Gene: TMEM50B (transmembrane protein 50B) Chlorocebus sabaeus
Analyze
Symbol: TMEM50B
Name: transmembrane protein 50B
RGD ID: 18629430
Description: INVOLVED IN late endosome to vacuole transport via multivesicular body sorting pathway (inferred); protein targeting to vacuole (inferred); ASSOCIATED WITH amyotrophic lateral sclerosis type 1 (ortholog); autosomal dominant intellectual developmental disorder 7 (ortholog); genetic disease (ortholog); FOUND IN endoplasmic reticulum (ortholog)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1258,701,542 - 58,730,311 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl258,701,557 - 58,733,139 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660711,203,235 - 1,231,970 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
TMEM50B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1258,701,542 - 58,730,311 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl258,701,557 - 58,733,139 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660711,203,235 - 1,231,970 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
TMEM50B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382133,432,486 - 33,479,974 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2133,432,485 - 33,479,974 (-)EnsemblGRCh38hg38GRCh38
GRCh372134,804,793 - 34,852,281 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362133,743,318 - 33,774,151 (-)NCBINCBI36Build 36hg18NCBI36
Build 342133,726,662 - 33,774,120NCBI
Celera2120,011,535 - 20,051,915 (-)NCBICelera
Cytogenetic Map21q22.11NCBI
HuRef2120,273,351 - 20,330,637 (-)NCBIHuRef
CHM1_12134,367,161 - 34,415,001 (-)NCBICHM1_1
T2T-CHM13v2.02131,804,757 - 31,861,806 (-)NCBIT2T-CHM13v2.0
Tmem50b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391691,371,390 - 91,394,573 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1691,371,391 - 91,394,688 (-)EnsemblGRCm39 Ensembl
GRCm381691,574,508 - 91,597,680 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1691,574,503 - 91,597,800 (-)EnsemblGRCm38mm10GRCm38
MGSCv371691,574,753 - 91,597,925 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361691,463,367 - 91,486,539 (-)NCBIMGSCv36mm8
Celera1692,651,244 - 92,674,477 (-)NCBICelera
Cytogenetic Map16C3.3NCBI
cM Map1653.11NCBI
Tmem50b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81144,290,805 - 44,323,650 (-)NCBIGRCr8
mRatBN7.21130,804,835 - 30,837,675 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1130,804,837 - 30,837,661 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1139,498,895 - 39,531,707 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01132,170,331 - 32,203,144 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01131,335,533 - 31,368,207 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01131,719,441 - 31,752,276 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1131,719,443 - 31,752,243 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01135,327,975 - 35,361,018 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41131,533,823 - 31,566,625 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11131,572,882 - 31,605,683 (-)NCBI
Celera1130,472,297 - 30,505,079 (-)NCBICelera
Cytogenetic Map11q11NCBI
Tmem50b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540732,874,905 - 32,916,036 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540732,876,380 - 32,916,036 (-)NCBIChiLan1.0ChiLan1.0
TMEM50B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22229,540,278 - 29,597,904 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12124,416,790 - 24,457,312 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02119,789,799 - 19,847,335 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12133,163,876 - 33,219,556 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2133,163,876 - 33,219,556 (-)Ensemblpanpan1.1panPan2
TMEM50B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13128,061,730 - 28,117,485 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3128,059,668 - 28,115,211 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03128,266,679 - 28,322,494 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3128,248,956 - 28,303,358 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13128,133,780 - 28,189,375 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03128,146,996 - 28,203,005 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03128,647,598 - 28,703,167 (-)NCBIUU_Cfam_GSD_1.0
Tmem50b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497128,594,313 - 28,641,933 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365008,825,846 - 8,873,510 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365008,825,956 - 8,873,510 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TMEM50B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13197,046,682 - 197,093,241 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113197,048,285 - 197,093,308 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Tmem50b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474521,663,673 - 21,704,836 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474521,649,759 - 21,704,734 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


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

endocrine system hemolymphoid system nervous system
High
Medium 36 59
Low 20 1
Below cutoff

Sequence


RefSeq Acc Id: ENSCSAT00000007878   ⟹   ENSCSAP00000006043
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl258,701,557 - 58,733,139 (+)Ensembl
RefSeq Acc Id: XM_007964570   ⟹   XP_007962761
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1258,701,545 - 58,730,311 (+)NCBI
Vero_WHO_p1.0NW_0236660711,203,235 - 1,231,970 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007964572   ⟹   XP_007962763
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1258,701,542 - 58,730,311 (+)NCBI
Vero_WHO_p1.0NW_0236660711,203,235 - 1,231,970 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_007962761 (Get FASTA)   NCBI Sequence Viewer  
  XP_007962763 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000006043
  ENSCSAP00000006043.1
RefSeq Acc Id: XP_007962763   ⟸   XM_007964572
- Peptide Label: isoform X2
RefSeq Acc Id: XP_007962761   ⟸   XM_007964570
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RBQ4 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCSAP00000006043   ⟸   ENSCSAT00000007878


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000009794 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000007878.1 UniProtKB/TrEMBL
InterPro UPF0220 UniProtKB/TrEMBL
KEGG Report csab:103216857 UniProtKB/TrEMBL
NCBI Gene TMEM50B ENTREZGENE
PANTHER PTHR13180 UniProtKB/TrEMBL
  TRANSMEMBRANE PROTEIN 50B UniProtKB/TrEMBL
Pfam UPF0220 UniProtKB/TrEMBL
UniProt A0A0D9RBQ4 ENTREZGENE, UniProtKB/TrEMBL