This locus represents naturally occurring read-through transcription between the neighboring ADP-ribosylation factor-like 2 (ARL2) and sorting nexin 15 (SNX15) genes on chromosome 11. The read-through transcript is a candidate for nonsense-mediated mRNA decay (NMD), and is therefore unlikely to produce a protein product. [provided by RefSeq, Dec 2010] See more...

Aliases for ARL2-SNX15 Gene

Data sources for ARL2-SNX15 Gene:

Subcategory (RNA class) for ARL2-SNX15 Gene

lncRNA

Aliases for ARL2-SNX15 Gene

External Ids for ARL2-SNX15 Gene

Previous GeneCards Identifiers for ARL2-SNX15 Gene

  • GC11U901787
  • GC11P064783
  • GC11P064784

Summaries for ARL2-SNX15 Gene

Entrez Gene Summary for ARL2-SNX15 Gene

  • This locus represents naturally occurring read-through transcription between the neighboring ADP-ribosylation factor-like 2 (ARL2) and sorting nexin 15 (SNX15) genes on chromosome 11. The read-through transcript is a candidate for nonsense-mediated mRNA decay (NMD), and is therefore unlikely to produce a protein product. [provided by RefSeq, Dec 2010]

GeneCards Summary for ARL2-SNX15 Gene

ARL2-SNX15 (ARL2-SNX15 Readthrough (NMD Candidate)) is an RNA Gene, and is affiliated with the lncRNA class. Diseases associated with ARL2-SNX15 include Microcornea, Rod-Cone Dystrophy, Cataract, And Posterior Staphyloma 1. Gene Ontology (GO) annotations related to this gene include GTP binding and obsolete signal transducer activity. An important paralog of this gene is ARL2.

Additional gene information for ARL2-SNX15 Gene

No data available for CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for ARL2-SNX15 Gene

Genomics for ARL2-SNX15 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for ARL2-SNX15 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
GH11J065012 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas 250.7 +0.1 97 2.7 ZBTB10 SP1 MXD4 MNT SMAD5 MBD2 ZNF217 POLR2A BRCA1 CTCF ARL2 ARL2-SNX15 HSALNG0084843 BATF2 POLA2 PCNX3 ZFPL1 KAT5 EIF1AD ENSG00000257086
GH11J065026 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas 0.4 +13.7 13744 2.3 ZSCAN16 ZBTB10 SP1 MNT DEK IKZF1 ZNF217 CTCF BHLHE40 ZBTB7B SNX15 EEF1A1P18 ENSG00000270775 hsa-miR-5095-067 lnc-NAALADL1-2 EIF1AD SF1 PCNX3 POLA2 ZFPL1
GH11J065040 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 0.3 +28.3 28256 4.5 TBP SP1 MXD4 NR2C1 MNT DEK IKZF1 SMAD5 ETS1 ZNF217 SAC3D1 piR-35592 piR-38383 KAT5 MUS81 RNASEH2C SF1 DPF2 POLA2 ENSG00000260233
GH11J065021 Promoter/Enhancer 0.8 EPDnew Ensembl 0.4 +8.5 8488 1.6 ZBTB33 CEBPB PHF21A KDM1A RNF2 ZBTB6 NFIC ARL2 HSALNG0084844 SLC22A20P ENSG00000270775 SNX15 lnc-NAALADL1-2 ARL2-SNX15
GH11J065017 Promoter 0.5 EPDnew 0.7 +3.9 3876 0.1 ZKSCAN1 ZNF507 ARL2 MIR6879 piR-34822-055 MAJIN ARL2-SNX15 SNX15
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around ARL2-SNX15 on the GeneHancer Hub at the UCSC Golden Path

Genomic Locations for ARL2-SNX15 Gene

Latest Assembly
chr11:65,014,113-65,040,572
(GRCh38/hg38)
Size:
26,460 bases
Orientation:
Plus strand

Previous Assembly
chr11:64,781,585-64,808,044
(GRCh37/hg19 by Entrez Gene)
Size:
26,460 bases
Orientation:
Plus strand

chr11:64,781,654-64,808,042
(GRCh37/hg19 by Ensembl)
Size:
26,389 bases
Orientation:
Plus strand

Genomic View for ARL2-SNX15 Gene

Genes around ARL2-SNX15 on UCSC Golden Path with GeneCards custom track
ARL2-SNX15 in the GeneCaRNA (GeneCards ncRNA compendium) hub on the UCSC Golden Path

Cytogenetic band:
ARL2-SNX15 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ARL2-SNX15 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ARL2-SNX15 Gene

Proteins for ARL2-SNX15 Gene

  • Protein details for ARL2-SNX15 Gene (UniProtKB/TrEMBL)

    Protein Symbol:
    V9GYD0-V9GYD0_HUMAN
    Recommended name:
    ARL2-SNX15 readthrough (NMD candidate)
    Protein Accession:
    V9GYD0

    Protein attributes for ARL2-SNX15 Gene

    Size:
    113 amino acids
    Molecular mass:
    13176 Da
    Quaternary structure:
    No Data Available

neXtProt entry for ARL2-SNX15 Gene

Post-translational modifications for ARL2-SNX15 Gene

No Post-translational modifications

Other Protein References for ARL2-SNX15 Gene

ENSEMBL proteins:

No data available for DME Specific Peptides for ARL2-SNX15 Gene

Domains & Families for ARL2-SNX15 Gene

Gene Families for ARL2-SNX15 Gene

Unknown:
  • Belongs to the small GTPase superfamily. Arf family.

Protein Domains for ARL2-SNX15 Gene

genes like me logo Genes that share domains with ARL2-SNX15: view

No data available for Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for ARL2-SNX15 Gene

Function for ARL2-SNX15 Gene

Gene Ontology (GO) - Molecular Function for ARL2-SNX15 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding IEA --
GO:0005525 GTP binding IEA --
genes like me logo Genes that share ontologies with ARL2-SNX15: view
genes like me logo Genes that share phenotypes with ARL2-SNX15: view

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for ARL2-SNX15 Gene

Localization for ARL2-SNX15 Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for ARL2-SNX15 Gene

Pathways & Interactions for ARL2-SNX15 Gene

PathCards logo

SuperPathways for ARL2-SNX15 Gene

No Data Available

Gene Ontology (GO) - Biological Process for ARL2-SNX15 Gene

None

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for ARL2-SNX15 Gene

Drugs & Compounds for ARL2-SNX15 Gene

No Compound Related Data Available

Transcripts for ARL2-SNX15 Gene

Non-coding RNA (ncRNA) Transcripts from RNAcentral for ARL2-SNX15 Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS000075D765_9606 lncRNA 2463 1

RefSeq: NR_037650,

URS00009BA56E_9606 lncRNA 901 1

NONCODE: NONHSAT159223.1,

URS00009AEE40_9606 lncRNA 586 1

NONCODE: NONHSAT159224.1,

URS0000EAFBCA_9606 lncRNA 312 1

LncBook: HSALNT0176688,

ARL2-SNX15 in the GeneCaRNA (GeneCards ncRNA compendium) hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for ARL2-SNX15 Gene

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

Alternative Splicing Database (ASD) splice patterns (SP) for ARL2-SNX15 Gene

No ASD Table

Relevant External Links for ARL2-SNX15 Gene

GeneLoc Exon Structure for
ARL2-SNX15

Expression for ARL2-SNX15 Gene

No Expression Related Data Available

No data available for mRNA expression in normal human tissues , mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , 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 ARL2-SNX15 Gene

Orthologs for ARL2-SNX15 Gene

This gene was present in the common ancestor of animals.

Orthologs for ARL2-SNX15 Gene

Organism Taxonomy Gene Similarity Type Details
Dog
(Canis familiaris)
Mammalia -- 31
  • 74 (a)
OneToOne
Mouse
(Mus musculus)
Mammalia Arl2 31
  • 61 (a)
OneToMany
Cow
(Bos Taurus)
Mammalia ARL2 31
  • 61 (a)
OneToMany
Oppossum
(Monodelphis domestica)
Mammalia -- 31
  • 60 (a)
OneToMany
Chimpanzee
(Pan troglodytes)
Mammalia -- 31
  • 58 (a)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia -- 31
  • 38 (a)
OneToMany
Chicken
(Gallus gallus)
Aves -- 31
  • 28 (a)
ManyToMany
Lizard
(Anolis carolinensis)
Reptilia -- 31
  • 52 (a)
OneToMany
Zebrafish
(Danio rerio)
Actinopterygii arl2 31
  • 54 (a)
OneToMany
Fruit Fly
(Drosophila melanogaster)
Insecta Arf84F 31
  • 50 (a)
OneToMany
Worm
(Caenorhabditis elegans)
Secernentea evl-20 31
  • 41 (a)
OneToMany
Sea Squirt
(Ciona savignyi)
Ascidiacea CSA.2707 31
  • 54 (a)
OneToMany
Species where no ortholog for ARL2-SNX15 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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)
  • Rat (Rattus norvegicus)
  • 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)
  • Tropical Clawed Frog (Silurana tropicalis)
  • Wheat (Triticum aestivum)

Evolution for ARL2-SNX15 Gene

ENSEMBL:
Gene Tree for ARL2-SNX15 (if available)
TreeFam:
Gene Tree for ARL2-SNX15 (if available)

Paralogs for ARL2-SNX15 Gene

genes like me logo Genes that share paralogs with ARL2-SNX15: view

Variants for ARL2-SNX15 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for ARL2-SNX15 Gene

SNP ID Clinical significance and condition Chr 11 pos Variation AA Info Type
983502 Pathogenic: Microcornea, rod-cone dystrophy, cataract, and posterior staphyloma 1 65,014,251(+) G/T
NM_001667.4(ARL2):c.44G>T (p.Arg15Leu)
MISSENSE_VARIANT,NON_CODING_TRANSCRIPT

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for ARL2-SNX15 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 ARL2-SNX15 Gene

Variant ID Type Subtype PubMed ID
esv3626667 CNV loss 21293372
esv3626668 CNV gain 21293372
esv3626669 CNV gain 21293372
nsv1113400 CNV deletion 24896259
nsv1113401 CNV deletion 24896259
nsv1122633 CNV deletion 24896259
nsv526181 CNV gain 19592680
nsv983034 CNV duplication 23825009

Additional Variant Information for ARL2-SNX15 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
ARL2-SNX15

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for ARL2-SNX15 Gene

Disorders for ARL2-SNX15 Gene

MalaCards: The human disease database

(1) MalaCards diseases for ARL2-SNX15 Gene - From: GCD

- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for ARL2-SNX15

genes like me logo Genes that share disorders with ARL2-SNX15: view

No data available for UniProtKB/Swiss-Prot and Genatlas for ARL2-SNX15 Gene

Publications for ARL2-SNX15 Gene

  1. Expression of conjoined genes: another mechanism for gene regulation in eukaryotes. (PMID: 20967262) Prakash T … Taylor TD (PloS one 2010) 3
  2. Human chromosome 11 DNA sequence and analysis including novel gene identification. (PMID: 16554811) Taylor TD … Sakaki Y (Nature 2006) 13
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3

Products for ARL2-SNX15 Gene

Sources for ARL2-SNX15 Gene