Aliases for TMEM88B Gene

Aliases for TMEM88B Gene

  • Transmembrane Protein 88B 2 3 4 5

External Ids for TMEM88B Gene

Previous GeneCards Identifiers for TMEM88B Gene

  • GC01P001352
  • GC01P000634
  • GC01P001362

Summaries for TMEM88B Gene

GeneCards Summary for TMEM88B Gene

TMEM88B (Transmembrane Protein 88B) is a Protein Coding gene.

Additional gene information for TMEM88B Gene

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for TMEM88B Gene

Genomics for TMEM88B Gene

GeneHancer (GH) Regulatory Elements for TMEM88B Gene

Promoters and enhancers for TMEM88B Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH01J001425 Promoter/Enhancer 1.8 Ensembl ENCODE CraniofacialAtlas dbSUPER 750.6 +0.7 683 2.8 ZBTB6 NR2F1 NR2F6 ZNF148 POLR2A SP7 SP5 EGR1 KLF14 GLIS2 TMEM88B lnc-ANKRD65-1 lnc-TMEM88B-1 ATAD3C ANKRD65 LINC01770
GH01J001424 Enhancer 0.5 Ensembl dbSUPER 750.6 -1.8 -1827 0.2 SREBF1 ZBTB6 TMEM88B lnc-ANKRD65-4 piR-61056 ANKRD65
GH01J001156 Promoter/Enhancer 1.8 FANTOM5 ENCODE CraniofacialAtlas dbSUPER 4.3 -267.7 -267662 4.4 ZBTB40 POLR2A ELF1 L3MBTL2 ZNF148 GTF2F1 ELF3 ZFX MLLT1 ZNF687 TTLL10 ATAD3B INTS11 TTLL10-AS1 SLC35E2A LINC01409 LINC01786 UBE2J2 LINC00115 ENSG00000240731
GH01J001840 Enhancer 0.8 FANTOM5 ENCODE dbSUPER 9.2 +415.0 414980 2.1 CTCF SCRT2 ZSCAN5C PRDM6 TMEM88B ENSG00000231050 ATAD3C PRKCZ CALML6 RF00017-006 piR-43105-002 lnc-TMEM52-1 GNB1
GH01J001428 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 2.3 +7.3 7348 10.5 ZBTB40 ZBTB6 MLX FOXA1 RBPJ SMARCE1 NR2F1 NR2F6 MIXL1 ZNF362 VWA1 LINC01770 ATAD3C UBE2J2 ANKRD65 CDK11B ATAD3B FAAP20 MRPL20 ENSG00000227775
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around TMEM88B on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the TMEM88B gene promoter:
  • E47
  • GATA-2
  • GATA-3
  • Gfi-1
  • Lmo2
  • MyoD
  • NCX
  • POU2F1
  • POU2F1a
  • Tal-1beta

Genomic Locations for TMEM88B Gene

Genomic Locations for TMEM88B Gene
chr1:1,426,128-1,427,787
(GRCh38/hg38)
Size:
1,660 bases
Orientation:
Plus strand
chr1:1,361,508-1,363,167
(GRCh37/hg19)
Size:
1,660 bases
Orientation:
Plus strand

Genomic View for TMEM88B Gene

Genes around TMEM88B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TMEM88B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TMEM88B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TMEM88B Gene

Proteins for TMEM88B Gene

  • Protein details for TMEM88B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    A6NKF7-TM88B_HUMAN
    Recommended name:
    Transmembrane protein 88B
    Protein Accession:
    A6NKF7

    Protein attributes for TMEM88B Gene

    Size:
    163 amino acids
    Molecular mass:
    17097 Da
    Quaternary structure:
    No Data Available

neXtProt entry for TMEM88B Gene

Post-translational modifications for TMEM88B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for TMEM88B Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for TMEM88B Gene

Domains & Families for TMEM88B Gene

Gene Families for TMEM88B Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins

Protein Domains for TMEM88B Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for TMEM88B Gene

GenScript: Design optimal peptide antigens:
  • Transmembrane protein 88B (TM88B_HUMAN)

Graphical View of Domain Structure for InterPro Entry

A6NKF7

UniProtKB/Swiss-Prot:

TM88B_HUMAN :
  • Belongs to the TMEM88 family.
Family:
  • Belongs to the TMEM88 family.
genes like me logo Genes that share domains with TMEM88B: view

Function for TMEM88B Gene

Gene Ontology (GO) - Molecular Function for TMEM88B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0030165 PDZ domain binding IBA 21873635
genes like me logo Genes that share ontologies with TMEM88B: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for TMEM88B

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Phenotypes , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TMEM88B Gene

Localization for TMEM88B Gene

Subcellular locations from UniProtKB/Swiss-Prot for TMEM88B Gene

Membrane; Multi-pass membrane protein.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for TMEM88B gene
Compartment Confidence
plasma membrane 3

Gene Ontology (GO) - Cellular Components for TMEM88B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane IBA 21873635
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with TMEM88B: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for TMEM88B Gene

Pathways & Interactions for TMEM88B Gene

PathCards logo

SuperPathways for TMEM88B Gene

No Data Available

Interacting Proteins for TMEM88B Gene

Gene Ontology (GO) - Biological Process for TMEM88B Gene

None

No data available for Pathways by source and SIGNOR curated interactions for TMEM88B Gene

Drugs & Compounds for TMEM88B Gene

No Compound Related Data Available

Transcripts for TMEM88B Gene

mRNA/cDNA for TMEM88B Gene

(1) REFSEQ mRNAs :
(1) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for TMEM88B

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for TMEM88B Gene

No ASD Table

Relevant External Links for TMEM88B Gene

GeneLoc Exon Structure for
TMEM88B
ECgene alternative splicing isoforms for
TMEM88B

Expression for TMEM88B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for TMEM88B Gene

mRNA differential expression in normal tissues according to GTEx for TMEM88B Gene

This gene is overexpressed in Brain - Spinal cord (cervical c-1) (x12.7), Brain - Substantia nigra (x8.1), Brain - Hippocampus (x5.4), Brain - Putamen (basal ganglia) (x4.3), Brain - Hypothalamus (x4.3), and Brain - Amygdala (x4.1).

NURSA nuclear receptor signaling pathways regulating expression of TMEM88B Gene:

TMEM88B

SOURCE GeneReport for Unigene cluster for TMEM88B Gene:

Hs.729765
genes like me logo Genes that share expression patterns with TMEM88B: view

No data available for Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for TMEM88B Gene

Orthologs for TMEM88B Gene

This gene was present in the common ancestor of mammals.

Orthologs for TMEM88B Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia TMEM88B 33 32
  • 81.97 (n)
OneToOne
dog
(Canis familiaris)
Mammalia TMEM88B 33 32
  • 79.56 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Tmem88b 32
  • 73.74 (n)
mouse
(Mus musculus)
Mammalia Tmem88b 17 33 32
  • 71.66 (n)
Species where no ortholog for TMEM88B was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • chimpanzee (Pan troglodytes)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for TMEM88B Gene

ENSEMBL:
Gene Tree for TMEM88B (if available)
TreeFam:
Gene Tree for TMEM88B (if available)
Aminode:
Evolutionary constrained regions (ECRs) for TMEM88B: view image

Paralogs for TMEM88B Gene

No data available for Paralogs for TMEM88B Gene

Variants for TMEM88B Gene

Sequence variations from dbSNP and Humsavar for TMEM88B Gene

SNP ID Clin Chr 01 pos Variation AA Info Type
rs1001542388 -- 1,425,391(+) G/A upstream_transcript_variant
rs1002273370 -- 1,425,655(+) G/A upstream_transcript_variant
rs1002606914 -- 1,424,945(+) C/G/T upstream_transcript_variant
rs1002709347 -- 1,427,674(+) G/T coding_sequence_variant, missense_variant
rs1002721519 -- 1,424,770(+) C/T upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for TMEM88B Gene

Variant ID Type Subtype PubMed ID
dgv2n67 CNV gain 20364138
esv24333 CNV gain 19812545
esv2758913 CNV gain+loss 17122850
esv3389517 CNV duplication 20981092
esv3577672 CNV loss 25503493
nsv1009541 CNV gain 25217958
nsv1011818 CNV gain 25217958
nsv10161 CNV gain+loss 18304495
nsv1074978 CNV deletion 25765185
nsv1121740 CNV deletion 24896259
nsv1126168 CNV deletion 24896259
nsv482937 CNV loss 15286789
nsv545000 CNV loss 21841781
nsv950452 CNV deletion 24416366

Variation tolerance for TMEM88B Gene

Gene Damage Index Score: 3.71; 57.43% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for TMEM88B Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TMEM88B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TMEM88B Gene

Disorders for TMEM88B Gene

Additional Disease Information for TMEM88B

No disorders were found for TMEM88B Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TMEM88B Gene

Publications for TMEM88B Gene

  1. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory SG … Prigmore E (Nature 2006) 3 4 56
  2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. (PMID: 21873635) Gaudet P … Thomas PD (Briefings in bioinformatics 2011) 3 56

Products for TMEM88B Gene

Sources for TMEM88B Gene