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Aliases for SYNDIG1L Gene

Aliases for SYNDIG1L Gene

  • Synapse Differentiation Inducing 1 Like 2 3 5
  • Transmembrane Protein 90A 2 3 4
  • Interferon Induced Transmembrane Protein Domain Containing 4 2 3
  • Dispanin Subfamily C Member 1 3 4
  • CAPUCIN 3 4
  • TMEM90A 3 4
  • DSPC1 3 4
  • Synapse Differentiation-Inducing Gene Protein 1-Like 3
  • Caudate- And Putamen-Enriched Sequence 3
  • Caudate-And Putamen-Enriched Sequence 2
  • IFITMD4 3

External Ids for SYNDIG1L Gene

Previous HGNC Symbols for SYNDIG1L Gene

  • TMEM90A

Previous GeneCards Identifiers for SYNDIG1L Gene

  • GC14M074873

Summaries for SYNDIG1L Gene

GeneCards Summary for SYNDIG1L Gene

SYNDIG1L (Synapse Differentiation Inducing 1 Like) is a Protein Coding gene. An important paralog of this gene is SYNDIG1.

Additional gene information for SYNDIG1L Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SYNDIG1L Gene

Genomics for SYNDIG1L Gene

GeneHancer (GH) Regulatory Elements for SYNDIG1L Gene

Promoters and enhancers for SYNDIG1L 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
GH14I074425 Promoter/Enhancer 1.5 EPDnew Ensembl ENCODE dbSUPER 550.4 +11.7 11668 1.1 SAP130 KLF6 SIN3A MIER2 REST ZNF48 RARA ZNF664 VEZF1 MXD3 SYNDIG1L LIN52 GC14M074406 GC14M074212
GH14I074437 Enhancer 0.5 ENCODE 550.8 -0.2 -212 0.1 KLF16 ZNF143 SIN3A MIER2 REST SYNDIG1L ENSG00000270000 GC14M074212
GH14I074438 Enhancer 0.3 ENCODE 550.8 -1.1 -1062 0.2 FEZF1 SYNDIG1L ENSG00000270000 GC14M074212
GH14I074610 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 9.6 -179.0 -178953 11.8 ARNT ARID4B SIN3A DMAP1 ZBTB7B YY1 ZNF143 FOS SP3 REST LTBP2 ENSG00000258976 YLPM1 ELMSAN1 ZNF410 FCF1 ENSG00000222604 MLH3 SYNDIG1L FOS
GH14I074347 Promoter/Enhancer 1.6 EPDnew Ensembl ENCODE dbSUPER 11.1 +88.3 88341 4.4 BCOR USF1 SIN3A ZNF664 POLR2A SCRT2 SCRT1 ZNF362 REST ATF2 VRTN ABCD4 SYNDIG1L NEK9 ENSG00000259005 PIR36701 GC14P074359 SUB1P2 GC14M074212
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SYNDIG1L on UCSC Golden Path with GeneCards custom track

Genomic Locations for SYNDIG1L Gene

Genomic Locations for SYNDIG1L Gene
chr14:74,405,893-74,437,631
(GRCh38/hg38)
Size:
31,739 bases
Orientation:
Minus strand
chr14:74,872,596-74,892,805
(GRCh37/hg19)

Genomic View for SYNDIG1L Gene

Genes around SYNDIG1L on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SYNDIG1L Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SYNDIG1L Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SYNDIG1L Gene

Proteins for SYNDIG1L Gene

  • Protein details for SYNDIG1L Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    A6NDD5-SYN1L_HUMAN
    Recommended name:
    Synapse differentiation-inducing gene protein 1-like
    Protein Accession:
    A6NDD5

    Protein attributes for SYNDIG1L Gene

    Size:
    238 amino acids
    Molecular mass:
    25796 Da
    Quaternary structure:
    No Data Available

neXtProt entry for SYNDIG1L Gene

Post-translational modifications for SYNDIG1L Gene

No Post-translational modifications

Other Protein References for SYNDIG1L Gene

No data available for DME Specific Peptides for SYNDIG1L Gene

Domains & Families for SYNDIG1L Gene

Gene Families for SYNDIG1L Gene

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

Protein Domains for SYNDIG1L Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for SYNDIG1L Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

A6NDD5

UniProtKB/Swiss-Prot:

SYN1L_HUMAN :
  • Belongs to the CD225/Dispanin family.
Family:
  • Belongs to the CD225/Dispanin family.
genes like me logo Genes that share domains with SYNDIG1L: view

Function for SYNDIG1L Gene

Phenotypes for SYNDIG1L Gene

MGI mutant phenotypes for SYNDIG1L:
inferred from 1 alleles
GenomeRNAi human phenotypes for SYNDIG1L:
genes like me logo Genes that share phenotypes with SYNDIG1L: view

Animal Models for SYNDIG1L Gene

MGI Knock Outs for SYNDIG1L:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SYNDIG1L Gene

Localization for SYNDIG1L Gene

Subcellular locations from UniProtKB/Swiss-Prot for SYNDIG1L Gene

Membrane; Multi-pass membrane protein. Golgi apparatus, cis-Golgi network.

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 SYNDIG1L gene
Compartment Confidence
golgi apparatus 4
plasma membrane 3

Gene Ontology (GO) - Cellular Components for SYNDIG1L Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005794 Golgi apparatus IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with SYNDIG1L: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for SYNDIG1L Gene

Pathways & Interactions for SYNDIG1L Gene

SuperPathways for SYNDIG1L Gene

No Data Available

Interacting Proteins for SYNDIG1L Gene

Gene Ontology (GO) - Biological Process for SYNDIG1L Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0009607 response to biotic stimulus IEA --
genes like me logo Genes that share ontologies with SYNDIG1L: view

No data available for Pathways by source and SIGNOR curated interactions for SYNDIG1L Gene

Drugs & Compounds for SYNDIG1L Gene

No Compound Related Data Available

Transcripts for SYNDIG1L Gene

mRNA/cDNA for SYNDIG1L Gene

(2) REFSEQ mRNAs :
(3) Additional mRNA sequences :
(3) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for SYNDIG1L Gene

Synapse differentiation inducing 1-like:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for SYNDIG1L Gene

No ASD Table

Relevant External Links for SYNDIG1L Gene

GeneLoc Exon Structure for
SYNDIG1L
ECgene alternative splicing isoforms for
SYNDIG1L

Expression for SYNDIG1L Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SYNDIG1L Gene

mRNA differential expression in normal tissues according to GTEx for SYNDIG1L Gene

This gene is overexpressed in Brain - Putamen (basal ganglia) (x20.6), Brain - Caudate (basal ganglia) (x16.2), and Brain - Nucleus accumbens (basal ganglia) (x13.0).

NURSA nuclear receptor signaling pathways regulating expression of SYNDIG1L Gene:

SYNDIG1L

SOURCE GeneReport for Unigene cluster for SYNDIG1L Gene:

Hs.12400
genes like me logo Genes that share expression patterns with SYNDIG1L: view

Primer Products

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 SYNDIG1L Gene

Orthologs for SYNDIG1L Gene

This gene was present in the common ancestor of chordates.

Orthologs for SYNDIG1L Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SYNDIG1L 33 34
  • 98.32 (n)
cow
(Bos Taurus)
Mammalia SYNDIG1L 33 34
  • 87.34 (n)
dog
(Canis familiaris)
Mammalia SYNDIG1L 33 34
  • 87.11 (n)
rat
(Rattus norvegicus)
Mammalia Syndig1l 33
  • 86.92 (n)
mouse
(Mus musculus)
Mammalia Syndig1l 33 16 34
  • 86.22 (n)
oppossum
(Monodelphis domestica)
Mammalia SYNDIG1L 34
  • 64 (a)
OneToOne
chicken
(Gallus gallus)
Aves SYNDIG1L 33 34
  • 68.55 (n)
lizard
(Anolis carolinensis)
Reptilia SYNDIG1L 34
  • 59 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii syndig1l 33 34
  • 62.03 (n)
Species where no ortholog for SYNDIG1L 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)
  • fruit fly (Drosophila melanogaster)
  • 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)
  • 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)

Evolution for SYNDIG1L Gene

ENSEMBL:
Gene Tree for SYNDIG1L (if available)
TreeFam:
Gene Tree for SYNDIG1L (if available)

Paralogs for SYNDIG1L Gene

Paralogs for SYNDIG1L Gene

(2) SIMAP similar genes for SYNDIG1L Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with SYNDIG1L: view

Variants for SYNDIG1L Gene

Sequence variations from dbSNP and Humsavar for SYNDIG1L Gene

SNP ID Clin Chr 14 pos Variation AA Info Type
rs1000013296 -- 74,446,593(-) A/G genic_upstream_transcript_variant, intron_variant
rs1000065059 -- 74,456,775(-) A/C genic_upstream_transcript_variant, intron_variant
rs1000150401 -- 74,458,848(-) T/C genic_upstream_transcript_variant, intron_variant
rs1000182617 -- 74,410,960(-) A/G intron_variant
rs1000272561 -- 74,475,813(-) CGCCCTC/C 5_prime_UTR_variant, genic_upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for SYNDIG1L Gene

Variant ID Type Subtype PubMed ID
esv33960 CNV gain 17666407
nsv832829 CNV loss 17160897

Variation tolerance for SYNDIG1L Gene

Residual Variation Intolerance Score: 73% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.56; 72.19% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SYNDIG1L Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SYNDIG1L

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SYNDIG1L Gene

Disorders for SYNDIG1L Gene

Additional Disease Information for SYNDIG1L

No disorders were found for SYNDIG1L Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SYNDIG1L Gene

Publications for SYNDIG1L Gene

  1. Capucin: a novel striatal marker down-regulated in rodent models of Huntington disease. (PMID: 16359841) de Chaldée M … Elalouf JM (Genomics 2006) 2 3 4 58
  2. The dispanins: a novel gene family of ancient origin that contains 14 human members. (PMID: 22363774) Sällman Almén M … Schiöth HB (PloS one 2012) 3 4 58
  3. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PMID: 16344560) Kimura K … Sugano S (Genome research 2006) 3 58
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 58
  5. The DNA sequence and analysis of human chromosome 14. (PMID: 12508121) Heilig R … Weissenbach J (Nature 2003) 4 58

Products for SYNDIG1L Gene

Sources for SYNDIG1L Gene

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