SEC16B is a mammalian homolog of S. cerevisiae Sec16 that is required for organization of transitional endoplasmic reticulum (ER) sites and protein export (Bhattacharyya and Glick, 2007 [PubMed 17192411]).[supplied by OMIM, Jun 2009] See more...

Aliases for SEC16B Gene

Aliases for SEC16B Gene

  • SEC16 Homolog B, Endoplasmic Reticulum Export Factor 2 3 5
  • Leucine Zipper Transcription Regulator 2 2 3 4
  • Regucalcin Gene Promoter Region-Related Protein P117 3 4
  • Regucalcin Gene Promotor Region Related Protein 2 3
  • Protein Transport Protein Sec16B 3 4
  • RGPR-P117 3 4
  • SEC16S 3 4
  • LZTR2 3 4
  • RGPR 3 4
  • SEC16 Homolog B (S. Cerevisiae) 2
  • Protein SEC16 Homolog B 3
  • SEC16 Homolog B 4
  • PGPR-P117 3
  • KIAA1928 4

External Ids for SEC16B Gene

Previous HGNC Symbols for SEC16B Gene

  • LZTR2

Previous GeneCards Identifiers for SEC16B Gene

  • GC01M176166
  • GC01M177896
  • GC01M149125

Summaries for SEC16B Gene

Entrez Gene Summary for SEC16B Gene

  • SEC16B is a mammalian homolog of S. cerevisiae Sec16 that is required for organization of transitional endoplasmic reticulum (ER) sites and protein export (Bhattacharyya and Glick, 2007 [PubMed 17192411]).[supplied by OMIM, Jun 2009]

GeneCards Summary for SEC16B Gene

SEC16B (SEC16 Homolog B, Endoplasmic Reticulum Export Factor) is a Protein Coding gene. Among its related pathways are Metabolism of proteins and Transport to the Golgi and subsequent modification. An important paralog of this gene is SEC16A.

UniProtKB/Swiss-Prot Summary for SEC16B Gene

  • Plays a role in the organization of the endoplasmic reticulum exit sites (ERES), also known as transitional endoplasmic reticulum (tER). Required for secretory cargo traffic from the endoplasmic reticulum to the Golgi apparatus (PubMed:17192411, PubMed:21768384, PubMed:22355596). Involved in peroxisome biogenesis. Regulates the transport of peroxisomal biogenesis factors PEX3 and PEX16 from the ER to peroxisomes (PubMed:21768384).

Gene Wiki entry for SEC16B Gene

Additional gene information for SEC16B Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SEC16B Gene

Genomics for SEC16B Gene

GeneHancer (GH) Regulatory Elements for SEC16B Gene

Promoters and enhancers for SEC16B 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
GH01J178037 Promoter/Enhancer 1.9 EPDnew Ensembl ENCODE CraniofacialAtlas 500.2 -53.7 -53733 1.9 CTCF POLR2G PHF8 ZFX GABPA RFX1 REST KLF4 SKI ZKSCAN8 CRYZL2P CRYZL2P-SEC16B SEC16B piR-30188-011
GH01J177983 Promoter/Enhancer 1.7 EPDnew Ensembl ENCODE CraniofacialAtlas 500.7 +0.3 265 1.8 ZNF217 ZSCAN5C SIX5 FOS ZIC2 ZBTB11 GABPA TRIM28 CTBP1 ZNF341 SEC16B CRYZL2P-SEC16B lnc-SEC16B-2
GH01J177968 Promoter/Enhancer 1.5 EPDnew Ensembl ENCODE 514 +14.6 14623 3.1 TCF12 POLR2G NCOR1 TEAD1 FOXA2 KMT2B NR2F2 MAFF KAT7 TBP SEC16B CRYZL2P lnc-SEC16B-2 CRYZL2P-SEC16B
GH01J178055 Enhancer 0.9 ENCODE 11.8 -72.9 -72852 3.9 ZSCAN5C USF1 POLR2G CTCF ZNF10 EP300 RAD21 TRIM22 TEAD1 ZBTB26 RASAL2 RASAL2-AS1 SEC16B CRYZL2P piR-53338-012 HSALNG0008680
GH01J178188 Enhancer 0.9 FANTOM5 Ensembl 11.4 -204.7 -204698 3.2 CTCF TEAD4 RAD21 TRIM22 TEAD1 FOXA2 SMC3 BATF ZNF654 HOMEZ RASAL2-AS1 RASAL2 CRYZL2P-SEC16B SEC16B ENSG00000270575 lnc-SEC16B-7 lnc-SEC16B-4
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SEC16B on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for SEC16B

Top Transcription factor binding sites by QIAGEN in the SEC16B gene promoter:
  • Brachyury
  • CREB
  • deltaCREB
  • FOXI1
  • HFH-3
  • MRF-2
  • Pbx1a
  • POU3F1
  • STAT5B
  • TBP

Genomic Locations for SEC16B Gene

Genomic Locations for SEC16B Gene
chr1:177,923,956-177,984,303
(GRCh38/hg38)
Size:
60,348 bases
Orientation:
Minus strand
chr1:177,893,091-177,953,438
(GRCh37/hg19)
Size:
60,348 bases
Orientation:
Minus strand

Genomic View for SEC16B Gene

Genes around SEC16B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SEC16B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SEC16B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SEC16B Gene

Proteins for SEC16B Gene

  • Protein details for SEC16B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96JE7-SC16B_HUMAN
    Recommended name:
    Protein transport protein Sec16B
    Protein Accession:
    Q96JE7
    Secondary Accessions:
    • A3EYF1
    • Q5HYF6
    • Q8N7D6
    • Q96GX6

    Protein attributes for SEC16B Gene

    Size:
    1060 amino acids
    Molecular mass:
    116604 Da
    Quaternary structure:
    • SEC16A and SEC16B are each present in multiple copies in a heteromeric complex (PubMed:17192411, PubMed:22355596). Interacts with TFG (PubMed:21478858). Interacts with SEC13 (PubMed:22355596).

    Alternative splice isoforms for SEC16B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SEC16B Gene

Post-translational modifications for SEC16B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SEC16B Gene

No data available for DME Specific Peptides for SEC16B Gene

Domains & Families for SEC16B Gene

Gene Families for SEC16B Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for SEC16B Gene

Blocks:
  • Phosphopantetheine attachment site
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for SEC16B Gene

GenScript: Design optimal peptide antigens:
  • SEC16 homolog B (S. cerevisiae) (B1AM07_HUMAN)
  • SEC16 homolog B (S. cerevisiae) (B1AM08_HUMAN)
  • KIAA1928 protein (Q96PW0_HUMAN)
  • SEC16 homolog B (SC16B_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q96JE7

UniProtKB/Swiss-Prot:

SC16B_HUMAN :
  • Belongs to the SEC16 family.
Family:
  • Belongs to the SEC16 family.
genes like me logo Genes that share domains with SEC16B: view

Function for SEC16B Gene

Molecular function for SEC16B Gene

UniProtKB/Swiss-Prot Function:
Plays a role in the organization of the endoplasmic reticulum exit sites (ERES), also known as transitional endoplasmic reticulum (tER). Required for secretory cargo traffic from the endoplasmic reticulum to the Golgi apparatus (PubMed:17192411, PubMed:21768384, PubMed:22355596). Involved in peroxisome biogenesis. Regulates the transport of peroxisomal biogenesis factors PEX3 and PEX16 from the ER to peroxisomes (PubMed:21768384).

Phenotypes From GWAS Catalog for SEC16B Gene

Gene Ontology (GO) - Molecular Function for SEC16B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 21478858
genes like me logo Genes that share ontologies with SEC16B: view
genes like me logo Genes that share phenotypes with SEC16B: view

Animal Models for SEC16B Gene

MGI Knock Outs for SEC16B:
  • Sec16b Sec16b<tm1a(KOMP)Wtsi>

Animal Model Products

CRISPR Products

miRNA for SEC16B Gene

miRTarBase miRNAs that target SEC16B

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SEC16B

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SEC16B Gene

Localization for SEC16B Gene

Subcellular locations from UniProtKB/Swiss-Prot for SEC16B Gene

Endoplasmic reticulum membrane; Peripheral membrane protein. Golgi apparatus membrane; Peripheral membrane protein. Note=Localizes to endoplasmic reticulum exit sites (ERES), also known as transitional endoplasmic reticulum (tER). {ECO:0000269 PubMed:17192411, ECO:0000269 PubMed:21478858, ECO:0000269 PubMed:21768384, ECO:0000269 PubMed:22355596}.

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 SEC16B gene
Compartment Confidence
endoplasmic reticulum 5
cytosol 4
nucleus 3
golgi apparatus 3
peroxisome 2
plasma membrane 1
extracellular 1
cytoskeleton 1
mitochondrion 1
endosome 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Actin filaments (2)
  • Endoplasmic reticulum (2)
  • Plasma membrane (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for SEC16B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000139 Golgi membrane IEA --
GO:0005783 endoplasmic reticulum IEA --
GO:0005789 endoplasmic reticulum membrane IEA --
GO:0005794 Golgi apparatus IEA --
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with SEC16B: view

Pathways & Interactions for SEC16B Gene

genes like me logo Genes that share pathways with SEC16B: view

SIGNOR curated interactions for SEC16B Gene

Is activated by:

Gene Ontology (GO) - Biological Process for SEC16B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006888 ER to Golgi vesicle-mediated transport TAS 22355596
GO:0007029 endoplasmic reticulum organization IDA,IBA 21768384
GO:0007030 Golgi organization IBA 21873635
GO:0007031 peroxisome organization IDA,IEA 21768384
GO:0010628 positive regulation of gene expression IMP 21768384
genes like me logo Genes that share ontologies with SEC16B: view

Drugs & Compounds for SEC16B Gene

No Compound Related Data Available

Transcripts for SEC16B Gene

mRNA/cDNA for SEC16B Gene

3 REFSEQ mRNAs :
11 NCBI additional mRNA sequence :
8 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 SEC16B

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SEC16B Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11a · 11b ^ 12 ^ 13 ^ 14 ^ 15a · 15b ^ 16 ^ 17 ^ 18 ^ 19 ^ 20 ^ 21a · 21b ^
SP1: - - - - - - - - - - -
SP2: -
SP3:
SP4: -
SP5: -
SP6:
SP7: - - - - - - -
SP8: - - - - - - -
SP9: -
SP10:
SP11:
SP12:

ExUns: 22a · 22b ^ 23 ^ 24 ^ 25 ^ 26 ^ 27a · 27b ^ 28 ^ 29 ^ 30 ^ 31 ^ 32 ^ 33 ^ 34 ^ 35 ^ 36 ^ 37 ^ 38 ^ 39a · 39b · 39c · 39d ^ 40
SP1: - -
SP2: - -
SP3: - -
SP4: -
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:

Relevant External Links for SEC16B Gene

GeneLoc Exon Structure for
SEC16B

Expression for SEC16B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SEC16B Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SEC16B Gene

This gene is overexpressed in Liver (x14.1).

Protein differential expression in normal tissues from HIPED for SEC16B Gene

This gene is overexpressed in Liver (42.3), Fetal Liver (16.4), and Pancreas (10.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for SEC16B Gene



Protein tissue co-expression partners for SEC16B Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SEC16B

SOURCE GeneReport for Unigene cluster for SEC16B Gene:

Hs.149540

mRNA Expression by UniProt/SwissProt for SEC16B Gene:

Q96JE7-SC16B_HUMAN
Tissue specificity: Ubiquitous.

Evidence on tissue expression from TISSUES for SEC16B Gene

  • Liver(4.4)
  • Eye(4.1)
genes like me logo Genes that share expression patterns with SEC16B: view

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for SEC16B Gene

Orthologs for SEC16B Gene

This gene was present in the common ancestor of animals.

Orthologs for SEC16B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SEC16B 30
  • 97.79 (n)
cow
(Bos Taurus)
Mammalia SEC16B 31 30
  • 83.48 (n)
OneToOne
dog
(Canis familiaris)
Mammalia SEC16B 31 30
  • 82.98 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Sec16b 17 31 30
  • 79.93 (n)
rat
(Rattus norvegicus)
Mammalia Sec16b 30
  • 79.58 (n)
oppossum
(Monodelphis domestica)
Mammalia SEC16B 31
  • 62 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SEC16B 31
  • 52 (a)
OneToOne
chicken
(Gallus gallus)
Aves SEC16B 31 30
  • 61.08 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SEC16B 31
  • 66 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia sec16b 30
  • 54.57 (n)
zebrafish
(Danio rerio)
Actinopterygii SEC16B 31
  • 33 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta Sec16 31
  • 10 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea sec-16 31
  • 15 (a)
ManyToMany
F13B9.1 31
  • 11 (a)
ManyToMany
Species where no ortholog for SEC16B 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)
  • 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)
  • 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)
  • wheat (Triticum aestivum)

Evolution for SEC16B Gene

ENSEMBL:
Gene Tree for SEC16B (if available)
TreeFam:
Gene Tree for SEC16B (if available)
Aminode:
Evolutionary constrained regions (ECRs) for SEC16B: view image

Paralogs for SEC16B Gene

Paralogs for SEC16B Gene

(2) SIMAP similar genes for SEC16B Gene using alignment to 4 proteins:

  • SC16B_HUMAN
  • E9PK14_HUMAN
  • H0YE70_HUMAN
  • U3KQ39_HUMAN
genes like me logo Genes that share paralogs with SEC16B: view

Variants for SEC16B Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for SEC16B Gene

SNP ID Clinical significance and condition Chr 01 pos Variation AA Info Type
rs12040910 - p.His292Arg
rs3813649 - p.Ser873Asn
rs591120 - p.Pro864Ala
rs7522194 - p.Gln845His
rs943762 - p.Gly730Arg

Additional dbSNP identifiers (rs#s) for SEC16B Gene

Structural Variations from Database of Genomic Variants (DGV) for SEC16B Gene

Variant ID Type Subtype PubMed ID
esv2663986 CNV deletion 23128226
esv2719829 CNV deletion 23290073
nsv1010839 CNV loss 25217958
nsv548252 CNV gain 21841781
nsv548253 CNV loss 21841781

Variation tolerance for SEC16B Gene

Residual Variation Intolerance Score: 99.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 13.53; 95.56% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SEC16B Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SEC16B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SEC16B Gene

Disorders for SEC16B Gene

Additional Disease Information for SEC16B

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for SEC16B Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SEC16B Gene

Publications for SEC16B Gene

  1. Molecular cloning and sequencing of the cDNA coding for a novel regucalcin gene promoter region-related protein in rat, mouse and human liver. (PMID: 11605020) Misawa H … Yamaguchi M (International journal of molecular medicine 2001) 2 3 4 23 54
  2. Sec16B is involved in the endoplasmic reticulum export of the peroxisomal membrane biogenesis factor peroxin 16 (Pex16) in mammalian cells. (PMID: 21768384) Yonekawa S … Tani K (Proceedings of the National Academy of Sciences of the United States of America 2011) 2 3 4 54
  3. Two mammalian Sec16 homologues have nonredundant functions in endoplasmic reticulum (ER) export and transitional ER organization. (PMID: 17192411) Bhattacharyya D … Glick BS (Molecular biology of the cell 2007) 2 3 4 54
  4. TFG-1 function in protein secretion and oncogenesis. (PMID: 21478858) Witte K … Audhya A (Nature cell biology 2011) 3 4 54
  5. Characterization of human Sec16B: indications of specialized, non-redundant functions. (PMID: 22355596) Budnik A … Stephens DJ (Scientific reports 2011) 3 4 54

Products for SEC16B Gene

Sources for SEC16B Gene