SEC61B Gene (Protein Coding)

SEC61 Translocon Subunit Beta

GC09P099222
GIFtS:
39
The Sec61 complex is the central component of the protein translocation apparatus of the endoplasmic reticulum (ER) membrane. Oligomers of the Sec61 complex form a transmembrane channel where proteins are translocated across and integrated into the ER membrane. This complex consists of three membrane proteins- alpha, beta, and gamma. This gene encodes the beta-subunit protein. ... See more...

Aliases for SEC61B Gene

Aliases for SEC61B Gene

  • SEC61 Translocon Subunit Beta 2 3 5
  • Protein Transport Protein Sec61 Subunit Beta 3 4
  • Sec61 Beta Subunit 2 3
  • Protein Transport Protein SEC61 Beta Subunit 3
  • Protein Translocation Complex Beta 3
  • SEC61 Translocon Beta Subunit 3
  • Sec61 Complex, Beta Subunit 3
  • SEC61B 5

External Ids for SEC61B Gene

Previous GeneCards Identifiers for SEC61B Gene

  • GC09P092784
  • GC09P093728
  • GC00U912984
  • GC09P097364
  • GC09P099064
  • GC09P101024
  • GC09P101984
  • GC09P071583

Summaries for SEC61B Gene

Entrez Gene Summary for SEC61B Gene

  • The Sec61 complex is the central component of the protein translocation apparatus of the endoplasmic reticulum (ER) membrane. Oligomers of the Sec61 complex form a transmembrane channel where proteins are translocated across and integrated into the ER membrane. This complex consists of three membrane proteins- alpha, beta, and gamma. This gene encodes the beta-subunit protein. The Sec61 subunits are also observed in the post-ER compartment, suggesting that these proteins can escape the ER and recycle back. There is evidence for multiple polyadenylated sites for this transcript. [provided by RefSeq, Jul 2008]

GeneCards Summary for SEC61B Gene

SEC61B (SEC61 Translocon Subunit Beta) is a Protein Coding gene. Diseases associated with SEC61B include Polycystic Liver Disease and Polycystic Kidney Disease 4 With Or Without Polycystic Liver Disease. Among its related pathways are Regulation of degradation of deltaF508 CFTR in CF and Phagosome. Gene Ontology (GO) annotations related to this gene include epidermal growth factor binding.

UniProtKB/Swiss-Prot Summary for SEC61B Gene

  • Component of SEC61 channel-forming translocon complex that mediates transport of signal peptide-containing precursor polypeptides across endoplasmic reticulum (ER) (By similarity). Required for PKD1/Polycystin-1 biogenesis (By similarity).

Gene Wiki entry for SEC61B Gene

Additional gene information for SEC61B Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SEC61B Gene

Genomics for SEC61B Gene

GeneHancer (GH) Regulatory Elements Pubs

Download GeneHancer 2017 data
Promoters and enhancers for SEC61B Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SEC61B on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for SEC61B

Top Transcription factor binding sites by QIAGEN in the SEC61B gene promoter:
  • Bach1
  • E2F
  • E2F-1
  • E2F-2
  • E2F-3a
  • E2F-4
  • E2F-5
  • E47
  • GR
  • GR-alpha

Genomic Locations for SEC61B Gene

Latest Assembly
chr9:99,222,064-99,230,615
(GRCh38/hg38)
Size:
8,552 bases
Orientation:
Plus strand

Previous Assembly
chr9:101,984,564-101,992,897
(GRCh37/hg19 by Entrez Gene)
Size:
8,334 bases
Orientation:
Plus strand

chr9:101,984,346-101,992,897
(GRCh37/hg19 by Ensembl)
Size:
8,552 bases
Orientation:
Plus strand

Genomic View for SEC61B Gene

Genes around SEC61B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SEC61B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SEC61B Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for SEC61B Gene

Proteins for SEC61B Gene

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  1. Antibodies for research
  2. Protein products for research
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  • Protein details for SEC61B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P60468-SC61B_HUMAN
    Recommended name:
    Protein transport protein Sec61 subunit beta
    Protein Accession:
    P60468
    Secondary Accessions:
    • P38390
    • P38391
    • Q6IBC1

    Protein attributes for SEC61B Gene

    Size:
    96 amino acids
    Molecular mass:
    9974 Da
    Quaternary structure:
    • The ER translocon complex consists of channel-forming core components SEC61A1, SEC61B and SEC61G and different auxiliary components such as SEC62 and SEC63.

    Three dimensional structures from OCA and Proteopedia for SEC61B Gene

neXtProt entry for SEC61B Gene

Protein Expression for SEC61B Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for SEC61B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SEC61B Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibodies for research

  • Abcam antibodies for SEC61B
  • Boster Bio Antibodies for SEC61B
  • Santa Cruz Biotechnology (SCBT) Antibodies for SEC61B

No data available for DME Specific Peptides for SEC61B Gene

Domains & Families for SEC61B Gene

Gene Families for SEC61B Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins
  • Transporters

Protein Domains for SEC61B Gene

InterPro:
Blocks:
  • Sec61beta
ProtoNet:

Suggested Antigen Peptide Sequences for SEC61B Gene

GenScript: Design optimal peptide antigens:
  • Protein transport protein Sec61 subunit beta (SC61B_HUMAN)

Graphical View of Domain Structure for InterPro Entry

P60468

UniProtKB/Swiss-Prot:

SC61B_HUMAN :
  • Belongs to the SEC61-beta family.
Family:
  • Belongs to the SEC61-beta family.
genes like me logo Genes that share domains with SEC61B: view

Function for SEC61B Gene

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  1. Animal Models for research
  2. CRISPR products for research
  3. miRNA products for research
  4. Inhibitory RNAs for research
  5. Clone products for research
  6. Cell Lines for research

Molecular function for SEC61B Gene

UniProtKB/Swiss-Prot Function:
Component of SEC61 channel-forming translocon complex that mediates transport of signal peptide-containing precursor polypeptides across endoplasmic reticulum (ER) (By similarity). Required for PKD1/Polycystin-1 biogenesis (By similarity).

Phenotypes From GWAS Catalog for SEC61B Gene

Gene Ontology (GO) - Molecular Function for SEC61B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding HDA 22658674
GO:0005085 guanyl-nucleotide exchange factor activity IBA --
GO:0005515 protein binding IPI 9792704
GO:0048408 epidermal growth factor binding IPI 19602593
genes like me logo Genes that share ontologies with SEC61B: view
genes like me logo Genes that share phenotypes with SEC61B: view

Animal Models for research

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SEC61B

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SEC61B Gene

Localization for SEC61B Gene

Subcellular locations from UniProtKB/Swiss-Prot for SEC61B Gene

Endoplasmic reticulum membrane. Single-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 SEC61B gene
Compartment Confidence
endoplasmic reticulum 5
cytosol 4
mitochondrion 3
plasma membrane 2
nucleus 2
extracellular 1
cytoskeleton 1
peroxisome 1
endosome 1
lysosome 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Endoplasmic reticulum (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for SEC61B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005783 endoplasmic reticulum IDA 18555783
GO:0005784 Sec61 translocon complex IEA --
GO:0005789 endoplasmic reticulum membrane TAS --
GO:0005829 cytosol TAS --
GO:0016020 membrane IDA 22375059
genes like me logo Genes that share ontologies with SEC61B: view

Pathways & Interactions for SEC61B Gene

genes like me logo Genes that share pathways with SEC61B: view

Pathways by source for SEC61B Gene

3 GeneGo (Thomson Reuters) pathways for SEC61B Gene
  • Immune response Antigen presentation by MHC class I
  • Regulation of degradation of deltaF508 CFTR in CF
  • Regulation of degradation of wt-CFTR
1 Qiagen pathway for SEC61B Gene
  • Cholera Infection
1 Cell Signaling Technology pathway for SEC61B Gene

Gene Ontology (GO) - Biological Process for SEC61B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006616 SRP-dependent cotranslational protein targeting to membrane, translocation IBA 21873635
GO:0006886 intracellular protein transport IEA --
GO:0015031 protein transport IEA --
GO:0030433 ubiquitin-dependent ERAD pathway IDA 8945469
GO:0030970 retrograde protein transport, ER to cytosol IMP 17215517
genes like me logo Genes that share ontologies with SEC61B: view

No data available for SIGNOR curated interactions for SEC61B Gene

Drugs & Compounds for SEC61B Gene

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  1. Drug products for research
No Compound Related Data Available

Transcripts for SEC61B Gene

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  1. CRISPR products for research
  2. miRNA products for research
  3. Inhibitory RNAs for research
  4. Clone products for research

mRNA/cDNA for SEC61B Gene

1 REFSEQ mRNAs :
6 NCBI additional mRNA sequence :
3 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SEC61B

Alternative Splicing Database (ASD) splice patterns (SP) for SEC61B Gene

ExUns: 1 ^ 2a · 2b · 2c ^ 3a · 3b ^ 4 ^ 5a · 5b ^ 6a · 6b
SP1: - -
SP2: - - - - - -
SP3: - - -
SP4: - -
SP5:

Relevant External Links for SEC61B Gene

GeneLoc Exon Structure for
SEC61B

Expression for SEC61B Gene

Products:

  1. Primer products for research
  2. Gene Expression Assays for research

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SEC61B Gene

mRNA expression in normal human tissues for SEC61B Gene
mRNA expression by GTEx for SEC61B GenemRNA expression by BioGPS for SEC61B Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for SEC61B Gene

This gene is overexpressed in Nasal epithelium (18.1) and Bone (13.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for SEC61B Gene



Protein tissue co-expression partners for SEC61B Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SEC61B

SOURCE GeneReport for Unigene cluster for SEC61B Gene:

Hs.191887

Evidence on tissue expression from TISSUES for SEC61B Gene

  • Liver(4.5)
  • Nervous system(4.5)
  • Kidney(2.7)
  • Pancreas(2.7)
  • Skin(2.6)
  • Stomach(2.4)
  • Intestine(2.3)
  • Blood(2.2)
  • Spleen(2.2)
  • Muscle(2.2)
  • Lung(2.1)
  • Heart(2.1)
  • Thyroid gland(2)
genes like me logo Genes that share expression patterns with SEC61B: view

Primer products for research

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SEC61B Gene

Orthologs for SEC61B Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for SEC61B Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
 Mammalia SEC61B 30 31
  • 100 (n)
 OneToOne
Oppossum
(Monodelphis domestica)
 Mammalia SEC61B 31
  • 96 (a)
 OneToOne
Dog
(Canis familiaris)
 Mammalia SEC61B 30 31
  • 93.75 (n)
 OneToOne
Cow
(Bos Taurus)
 Mammalia SEC61B 30 31
  • 93.4 (n)
 OneToOne
Rat
(Rattus norvegicus)
 Mammalia Sec61b 30
  • 89.93 (n)
Mouse
(Mus musculus)
 Mammalia Sec61b 30 17 31
  • 88.89 (n)
 OneToOne
Chicken
(Gallus gallus)
 Aves SEC61B 30 31
  • 81.6 (n)
 OneToOne
Lizard
(Anolis carolinensis)
 Reptilia SEC61B 31
  • 94 (a)
 OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
 Amphibia sec61b 30
  • 73.61 (n)
Str.1470 30
African clawed frog
(Xenopus laevis)
 Amphibia sec61beta-prov 30
Zebrafish
(Danio rerio)
 Actinopterygii sec61b 30 31
  • 72.92 (n)
 OneToOne
Dr.28987 30
Rainbow Trout
(Oncorhynchus mykiss)
 Actinopterygii Omy.8291 30
Fruit Fly
(Drosophila melanogaster)
 Insecta Sec61beta 30 31
  • 66.67 (n)
 OneToOne
African malaria mosquito
(Anopheles gambiae)
 Insecta AgaP_AGAP011504 30
  • 62.46 (n)
Worm
(Caenorhabditis elegans)
 Secernentea Y38F2AR.9 31
  • 60 (a)
 OneToOne
Wheat
(Triticum aestivum)
 Liliopsida Ta.11126 30
Sea Squirt
(Ciona savignyi)
 Ascidiacea -- 31
  • 60 (a)
 OneToOne
Species where no ortholog for SEC61B was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • 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)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Platypus (Ornithorhynchus anatinus)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • 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)

Evolution for SEC61B Gene

ENSEMBL:
Gene Tree for SEC61B (if available)
TreeFam:
Gene Tree for SEC61B (if available)
Aminode:
Evolutionary constrained regions (ECRs) for SEC61B: view image

Paralogs for SEC61B Gene

Pseudogenes.org Pseudogenes for SEC61B Gene

genes like me logo Genes that share paralogs with SEC61B: view

No data available for Paralogs for SEC61B Gene

Variants for SEC61B Gene

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  1. SNP Genotyping and Copy Number Assays for research

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for SEC61B Gene

SNP ID Clinical significance and condition Chr 09 pos Variation AA Info Type
rs1554708715 Uncertain Significance: not provided 99,227,899(+) G/GAA
NM_006808.3(SEC61B):c.106_107dup (p.Asn36fs) 		FRAMESHIFT
rs752939739 Uncertain Significance: not provided 99,222,364(+) A/G
NM_006808.3(SEC61B):c.1A>G (p.Met1Val) 		INITIATIOR_CODON_VARIANT,MISSENSE

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for SEC61B Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for SEC61B Gene

Variant ID Type Subtype PubMed ID
esv3621214 CNV gain 21293372
nsv477966 CNV novel sequence insertion 20440878
nsv831666 CNV gain 17160897

Variation tolerance for SEC61B Gene

Residual Variation Intolerance Score: 52.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.34; 7.62% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SEC61B Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SEC61B

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SEC61B Gene

Disorders for SEC61B Gene

MalaCards: The human disease database

(2) MalaCards diseases for SEC61B Gene - From: COP and GCD

Disorder Aliases PubMed IDs
polycystic liver disease
  • congenital cystic liver disease
polycystic kidney disease 4 with or without polycystic liver disease
  • pkd4
- elite association - COSMIC cancer census association via MalaCards

UniProtKB/Swiss-Prot

SC61B_HUMAN
  • Note=Loss-of-function SEC61B variations may cause autosomal dominant polycystic liver disease (PCLD) in patients that lack variations in known causative genes, such as PRKCSH and SEC63. {ECO:0000305 PubMed:28375157}.

Additional Disease Information for SEC61B

Atlas
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform
genes like me logo Genes that share disorders with SEC61B: view

No data available for Genatlas for SEC61B Gene

Publications for SEC61B Gene

  1. Evolutionary conservation of components of the protein translocation complex. (PMID: 8107851) Hartmann E … Rapoport TA (Nature 1994) 2 3 4
  2. Isolated polycystic liver disease genes define effectors of polycystin-1 function. (PMID: 28375157) Besse W … Somlo S (The Journal of clinical investigation 2017) 3 4
  3. Dynamic formation of ER-PM junctions presents a lipid phosphatase to regulate phosphoinositides. (PMID: 27044890) Dickson EJ … Hille B (The Journal of cell biology 2016) 3 4
  4. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PMID: 17081983) Olsen JV … Mann M (Cell 2006) 3 4
  5. DNA sequence and analysis of human chromosome 9. (PMID: 15164053) Humphray SJ … Dunham I (Nature 2004) 3 4

ExternalLinks

View latest publications for SEC61B gene in Mastermind

Products for SEC61B Gene

Sources for SEC61B Gene