TMEM88B (transmembrane protein 88B) - Rat Genome Database

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Gene: TMEM88B (transmembrane protein 88B) Canis lupus familiaris
Analyze
Symbol: TMEM88B
Name: transmembrane protein 88B
RGD ID: 12361600
Description: ENCODES a protein that exhibits PDZ domain binding (inferred); ASSOCIATED WITH chromosome 1p36 deletion syndrome (ortholog); congenital myasthenic syndrome 8 (ortholog); dilated cardiomyopathy 1LL (ortholog); FOUND IN membrane (inferred); plasma membrane (inferred)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1556,569,512 - 56,573,353 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl556,569,814 - 56,571,310 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha556,645,679 - 56,647,617 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0556,772,105 - 56,774,043 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl556,772,125 - 56,775,886 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1556,762,323 - 56,764,261 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0556,654,578 - 56,656,518 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0557,044,927 - 57,046,868 (+)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
TMEM88B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1556,569,512 - 56,573,353 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl556,569,814 - 56,571,310 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha556,645,679 - 56,647,617 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0556,772,105 - 56,774,043 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl556,772,125 - 56,775,886 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1556,762,323 - 56,764,261 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0556,654,578 - 56,656,518 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0557,044,927 - 57,046,868 (+)NCBIUU_Cfam_GSD_1.0
TMEM88B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3811,425,871 - 1,430,255 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl11,425,871 - 1,430,255 (+)EnsemblGRCh38hg38GRCh38
GRCh3711,361,251 - 1,365,635 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3611,351,425 - 1,353,030 (+)NCBINCBI36Build 36hg18NCBI36
Celera11,209,262 - 1,238,394 (-)NCBICelera
Cytogenetic Map1p36.33NCBI
HuRef1633,684 - 633,943 (+)NCBIHuRef
CHM1_111,348,921 - 1,350,553 (+)NCBICHM1_1
T2T-CHM13v2.01857,800 - 864,615 (+)NCBIT2T-CHM13v2.0
Tmem88b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394155,866,048 - 155,870,331 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4155,866,048 - 155,870,331 (-)EnsemblGRCm39 Ensembl
GRCm384155,781,591 - 155,785,874 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4155,781,591 - 155,785,874 (-)EnsemblGRCm38mm10GRCm38
MGSCv374155,155,700 - 155,159,983 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv364154,627,151 - 154,629,674 (-)NCBIMGSCv36mm8
Celera4158,053,444 - 158,057,690 (-)NCBICelera
Cytogenetic Map4E2NCBI
cM Map487.36NCBI
Tmem88b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85171,673,319 - 171,676,143 (-)NCBIGRCr8
mRatBN7.25166,391,080 - 166,393,904 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5166,391,080 - 166,393,904 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5169,095,879 - 169,098,731 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05170,917,300 - 170,920,152 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05170,879,831 - 170,882,683 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05173,230,364 - 173,233,188 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5173,230,364 - 173,233,188 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05176,705,977 - 176,708,801 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45172,640,032 - 172,642,856 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera5164,591,808 - 164,594,643 (-)NCBICelera
Cytogenetic Map5q36NCBI
Tmem88b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554869,376,707 - 9,379,315 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554869,376,707 - 9,379,315 (-)NCBIChiLan1.0ChiLan1.0
TMEM88B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21226,796,547 - 226,799,717 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11225,494,806 - 225,497,281 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01181,849 - 185,020 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.111,381,365 - 1,382,070 (+)NCBIpanpan1.1PanPan1.1panPan2
Tmem88b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505827,718,939 - 27,720,169 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049367371,746,208 - 1,746,947 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TMEM88B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl663,686,546 - 63,688,456 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1663,686,542 - 63,689,298 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2658,290,386 - 58,293,142 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TMEM88B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120130,028,526 - 130,031,739 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl20130,026,134 - 130,030,985 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605434,570,455 - 34,572,716 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tmem88b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248188,215,265 - 8,216,922 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248188,213,876 - 8,217,899 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in TMEM88B
38 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 integumental system nervous system respiratory system adipose tissue
High
Medium 4
Low 2 1
Below cutoff 2 1 10 3 4 6 5 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000036187   ⟹   ENSCAFP00000031538
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl556,569,814 - 56,571,310 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845044464   ⟹   ENSCAFP00845034841
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl556,772,125 - 56,775,886 (+)Ensembl
RefSeq Acc Id: XM_003434671   ⟹   XP_003434719
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1556,569,512 - 56,573,353 (+)NCBI
Dog10K_Boxer_Tasha556,645,679 - 56,647,617 (+)NCBI
Sequence:
RefSeq Acc Id: XM_038476481   ⟹   XP_038332409
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1556,762,323 - 56,764,261 (+)NCBI
RefSeq Acc Id: XM_038537619   ⟹   XP_038393547
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0557,044,927 - 57,046,868 (+)NCBI
RefSeq Acc Id: XM_038601784   ⟹   XP_038457712
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0556,654,578 - 56,656,518 (+)NCBI
RefSeq Acc Id: XM_038666357   ⟹   XP_038522285
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0556,772,105 - 56,774,043 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: XP_003434719   ⟸   XM_003434671
- UniProtKB: A0A8I3PKE0 (UniProtKB/TrEMBL),   A0A8P0PH68 (UniProtKB/TrEMBL),   A0A8C0KBM7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000031538   ⟸   ENSCAFT00000036187
RefSeq Acc Id: XP_038332409   ⟸   XM_038476481
RefSeq Acc Id: XP_038457712   ⟸   XM_038601784
RefSeq Acc Id: XP_038522285   ⟸   XM_038666357
- UniProtKB: A0A8I3PKE0 (UniProtKB/TrEMBL),   A0A8P0PH68 (UniProtKB/TrEMBL),   A0A8C0KBM7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038393547   ⟸   XM_038537619
- UniProtKB: A0A8C0KBM7 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845034841   ⟸   ENSCAFT00845044464


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000023524 Ensembl
  ENSCAFG00000055062 UniProtKB/TrEMBL
  ENSCAFG00845025202 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000100410.1 UniProtKB/TrEMBL
  ENSCAFT00845044464 ENTREZGENE
  ENSCAFT00845044464.1 UniProtKB/TrEMBL
InterPro TMEM88 UniProtKB/TrEMBL
KEGG Report cfa:100684204 UniProtKB/TrEMBL
NCBI Gene TMEM88B ENTREZGENE
PANTHER PTHR28628 UniProtKB/TrEMBL
  TRANSMEMBRANE PROTEIN 88B UniProtKB/TrEMBL
UniProt A0A8C0KBM7 ENTREZGENE
  A0A8I3PKE0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0PH68 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:47612 ENTREZGENE