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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

STX16-NPEPL1 Gene

protein-coding   GIFtS: 19
GCID: GC20P057229

STX16-NPEPL1 Readthrough (NMD Candidate)

  Search for STX16-NPEPL1
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
STX16-NPEPL1 Readthrough (NMD Candidate)1 2

External Ids:    HGNC: 419931   Entrez Gene: 1005345932   Ensembl: ENSG000002549957   UniProtKB: H3BU864   
ORGUL members:         
NONCODE14:n410692 n410691 n410695      

Export aliases for STX16-NPEPL1 gene to outside databases

Previous GC identifers: GC20U900674 GC20P057228


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for STX16-NPEPL1 Gene:
This locus represents naturally occurring read-through transcription between the neighboring syntaxin 16 (STX16)
and aminopeptidase-like 1 (NPEPL1) genes on chromosome 20. The read-through transcript is a candidate for
nonsense-mediated mRNA decay (NMD), and is thus unlikely to produce a protein product. (provided by RefSeq, Mar
2011)

GeneCards Summary for STX16-NPEPL1 Gene: 
STX16-NPEPL1 (STX16-NPEPL1 readthrough (NMD candidate)) is a protein-coding gene, and is affiliated with the lncRNA class. An important paralog of this gene is STX16.




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for STX16-NPEPL1
         Other transcription factors

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Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat STX16-NPEPL1


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 20q   Ensembl cytogenetic band:  20q13.32   HGNC cytogenetic band: 20q13.32

STX16-NPEPL1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
STX16-NPEPL1 gene location

GeneLoc information about chromosome 20         GeneLoc Exon Structure

GeneLoc location for GC20P057229:  view genomic region     (about GC identifiers)

Start:
57,226,309 bp from pter      End:
57,290,900 bp from pter
Size:
64,592 bases      Orientation:
plus strand
ORGUL member locations:
Legend (see complete legend)

ORGUL Member Locations for STX16-NPEPL1

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/TrEMBL: H3BU86 (See protein sequence)
Recommended Name: Protein STX16-NPEPL1  
Size: 382 amino acids; 43229 Da
Caution: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered
as preliminary data

STX16-NPEPL1 Protein expression data from MOPED1, PaxDb2 and MAXQB3 : --

ENSEMBL proteins: 
 ENSP00000457522  

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Gene Ontology (GO): 3 cellular component terms (GO ID links to tree view):    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005730nucleolus ----
GO:0016020membrane ----
GO:0043231intracellular membrane-bounded organelle ----

STX16-NPEPL1 for ontologies           About GeneDecksing



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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section
4 InterPro protein domains:
 IPR000727 T_SNARE_dom
 IPR010989 t-SNARE
 IPR006011 Syntaxin_N
 IPR006012 Syntaxin/epimorphin_CS

Graphical View of Domain Structure for InterPro Entry H3BU86

ProtoNet protein and cluster: H3BU86

UniProtKB/TrEMBL: H3BU86
Similarity: Belongs to the syntaxin family
Similarity: Contains 1 t-SNARE coiled-coil homology domain


STX16-NPEPL1 for domains           About GeneDecksing


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
About This Section

     Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view):    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005484SNAP receptor activity ----
GO:0005515protein binding ----
     
STX16-NPEPL1 for ontologies           About GeneDecksing


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(Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene).
About This Section



Interactions:

    Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for STX16-NPEPL1

Gene Ontology (GO): 2 biological process terms (GO ID links to tree view):    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0006886intracellular protein transport ----
GO:0016192vesicle-mediated transport ----

STX16-NPEPL1 for ontologies           About GeneDecksing



(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
About This Section
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Search CenterWatch for drugs/clinical trials and news about STX16-NPEPL1

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from EMD Millipore,
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About This Section

2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000530122 ENST00000413559
miRNA
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GeneLoc Exon Structure


(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section

STX16-NPEPL1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: --
STX16-NPEPL1 Expression
About this image

    SABiosciences Custom PCR Arrays for STX16-NPEPL1
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(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
About This Section

This gene was present in the common ancestor of animals and fungi.

Orthologs for STX16-NPEPL1 gene from 6/13 species (see all 13)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
chicken
(Gallus gallus)
Aves STX166
syntaxin-16
80(a)
possible ortholog
20(11418939-11429240)
lizard
(Anolis carolinensis)
Reptilia --
Uncharacterized protein
78(a)
possible ortholog
GL343475.1(153358-171341)
zebrafish
(Danio rerio)
Actinopterygii stx166
syntaxin 16
73(a)
possible ortholog
6(49674955-49688896)
fruit fly
(Drosophila melanogaster)
Insecta Syx166
Syntaxin 16
32(a)
1 → many
X(20263361-20264807)
worm
(Caenorhabditis elegans)
Secernentea syx-166
Protein SYN-16
29(a)
1 → many
III(5207560-5209203)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes TLG26
Syntaxin-like t-SNARE that forms a complex with Tl...
17(a)
1 → many
XV(290881-292074)
        Species with no ortholog for STX16-NPEPL1

ENSEMBL Gene Tree for STX16-NPEPL1 (if available)
TreeFam Gene Tree for STX16-NPEPL1 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
Paralogs for STX16-NPEPL1 gene
STX162  
1 SIMAP similar gene for STX16-NPEPL1 using alignment to 1 protein entry:     H3BU86_HUMAN:
STX16

STX16-NPEPL1 for paralogs           About GeneDecksing



(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section

10/137 SNPs in STX16-NPEPL1 are shown (see all 137)    About this table     
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 20 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1911592631,2
--57255111(+) TAGGGG/TTATGT 1 -- int10--------
rs1400823631,2
--57255221(+) AACAGC/TAGAAC 1 -- int10--------
rs1843728121,2
--57255337(+) CCACTA/GGCTCT 1 -- int10--------
rs1468719071,2
C--57255376(+) AGAGAC/TGTTTG 1 -- int10--------
rs799358471,2
C,F--57255456(+) GGGGAC/TCACAT 1 -- int11Minor allele frequency- T:0.03WA 118
rs61283981,2
C,F,A,H--57255467(+) AAAGGT/CGGCAA 1 -- int111Minor allele frequency- C:0.38NA WA CSA EA 375
rs1904846591,2
--57255552(+) GAGTAC/TGCAGA 1 -- int10--------
rs1407398741,2
C--57255559(+) CAGACA/GCAGTC 1 -- int10--------
rs1820708771,2
--57255711(+) ATGGAA/TTTCCT 1 -- int10--------
rs1459000351,2
--57255729(+) ATTTAC/GCAACC 1 -- int10--------

HapMap Linkage Disequilibrium report for STX16-NPEPL1 (57226309 - 57290900 bp)

Structural Variations
     Database of Genomic Variants (DGV) 8 variations for STX16-NPEPL1:    About this table     
Variant IDTypeSubtypePubMed ID
esv1002410CNV Deletion20482838
esv2665738CNV Deletion23128226
nsv513552CNV Insertion21212237
esv2558295CNV Insertion19546169
esv1198718CNV Insertion17803354
nsv828762CNV Loss20364138
nsv828761CNV Loss20364138
nsv912963CNV Gain21882294

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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
About This Section
  --

(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
About This Section

PubMed article for STX16-NPEPL1 gene integrated from 9 sources:
(articles sorted by number of sources associating them with STX16-NPEPL1)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Expression of conjoined genes: another mechanism for gene regulation in eukaryotes. (PubMed id 20967262)1 Prakash T....Taylor T.D. (2010)

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section
 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
About This Section
Entrez Gene: 100534593 HGNC: 41993 Ensembl:ENSG00000254995 euGenes: HUgn100534593 ECgene: STX16-NPEPL1
H-InvDB: STX16-NPEPL1

(According to HUGE)
About This Section
  --

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
  --

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
About This Section
Patent Information for STX16-NPEPL1 gene:
Search GeneIP for patents involving STX16-NPEPL1

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
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About This Section

 
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 Codon Optimization
 Protein Production and Purification
 Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for STX16-NPEPL1
 Browse SwitchGear 3'UTR luciferase reporter plasmids for STX16-NPEPL1
 Browse SwitchGear Promoter luciferase reporter plasmids for STX16-NPEPL1
 Search ThermoFisher Antibodies for STX16-NPEPL1
 Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat STX16-NPEPL1
 inGenious Targeting Laboratory - Custom generated mouse model solutions for STX16-NPEPL1
 inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for STX16-NPEPL1
Customized:
 lentivirus for stable overexpression of STX16-NPEPL1
 lentivirus expression plasmids for stable overexpression of STX16-NPEPL1
 adenovirus for overexpression of STX16-NPEPL1
 Search LSBio for Antibodies for STX16-NPEPL1
Customized transgenic rodents for:
 Humanization
 Biomarker expression
 Off-target effect monitoring
 Translational medicine
 Tissue-specific gene expresssion
 Time-controlled gene expresssion
       
GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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