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Aliases for SYNJ2-IT1 Gene

Subcategory (RNA class) for SYNJ2-IT1 Gene

non-coding RNA

Quality Score for this RNA gene is


Aliases for SYNJ2-IT1 Gene

  • SYNJ2 Intronic Transcript 1 2 3 5
  • SYNJ2 Intronic Transcript 1 (Non-Protein Coding) 2

External Ids for SYNJ2-IT1 Gene

Previous GeneCards Identifiers for SYNJ2-IT1 Gene

  • GC00U933550
  • GC06P158423

Summaries for SYNJ2-IT1 Gene

GeneCards Summary for SYNJ2-IT1 Gene

SYNJ2-IT1 (SYNJ2 Intronic Transcript 1) is an RNA Gene, and is affiliated with the non-coding RNA class.

Additional gene information for SYNJ2-IT1 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 SYNJ2-IT1 Gene

Genomics for SYNJ2-IT1 Gene

GeneHancer (GH) Regulatory Elements for SYNJ2-IT1 Gene

Promoters and enhancers for SYNJ2-IT1 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH06I157999 Enhancer 0.8 ENCODE dbSUPER 550.8 -1.6 -1610 0.8 TFAP4 MXI1 RXRA SAP130 MAX ZNF384 ZIC2 RAD21 ZNF48 TEAD3 SYNJ2-IT1 SYNJ2
GH06I158000 Enhancer 0.3 dbSUPER 550.8 -0.6 -646 0.3 SCRT2 SYNJ2-IT1 SYNJ2
GH06I158001 Enhancer 1.6 FANTOM5 Ensembl ENCODE dbSUPER 0.8 +2.2 2205 3.4 ATF1 ZNF766 ATF7 CAVIN1 ZNF592 SREBF1 MEF2D SSRP1 GMEB1 SMARCA4 SNX9 SYNJ2 SYNJ2-IT1 GC06M158055
GH06I157980 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 0.4 -16.3 -16299 8.2 HDGF PKNOX1 SMAD1 FOXA2 MLX ARNT ARID4B SIN3A DMAP1 ZNF2 SYNJ2 SYNJ2-IT1
GH06I157996 Enhancer 0.9 ENCODE dbSUPER 0.8 -4.6 -4553 0 HDGF MZF1 ZIC2 ZFHX2 EGR1 VEZF1 EGR2 GATAD2A L3MBTL2 ZEB2 SYNJ2-IT1 SYNJ2
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SYNJ2-IT1 on UCSC Golden Path with GeneCards custom track

Genomic Locations for SYNJ2-IT1 Gene

Genomic Locations for SYNJ2-IT1 Gene
1,277 bases
Plus strand

Genomic View for SYNJ2-IT1 Gene

Genes around SYNJ2-IT1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SYNJ2-IT1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SYNJ2-IT1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SYNJ2-IT1 Gene

Proteins for SYNJ2-IT1 Gene

Post-translational modifications for SYNJ2-IT1 Gene

No Post-translational modifications

No data available for DME Specific Peptides for SYNJ2-IT1 Gene

Domains & Families for SYNJ2-IT1 Gene

Graphical View of Domain Structure for InterPro Entry

No data available for Gene Families , Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for SYNJ2-IT1 Gene

Function for SYNJ2-IT1 Gene

Animal Model Products

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Gene Ontology (GO) - Molecular Function , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for SYNJ2-IT1 Gene

Localization for SYNJ2-IT1 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 SYNJ2-IT1 Gene

Pathways & Interactions for SYNJ2-IT1 Gene

SuperPathways for SYNJ2-IT1 Gene

No Data Available

Interacting Proteins for SYNJ2-IT1 Gene

Gene Ontology (GO) - Biological Process for SYNJ2-IT1 Gene


No data available for Pathways by source and SIGNOR curated interactions for SYNJ2-IT1 Gene

Drugs & Compounds for SYNJ2-IT1 Gene

No Compound Related Data Available

Transcripts for SYNJ2-IT1 Gene

mRNA/cDNA for SYNJ2-IT1 Gene

(1) Additional mRNA sequences :
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for SYNJ2-IT1 Gene

SYNJ2 intronic transcript 1 (non-protein coding):
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SYNJ2-IT1 Gene

No ASD Table

Relevant External Links for SYNJ2-IT1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for SYNJ2-IT1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SYNJ2-IT1 Gene

mRNA differential expression in normal tissues according to GTEx for SYNJ2-IT1 Gene

This gene is overexpressed in Testis (x28.8), Brain - Putamen (basal ganglia) (x5.0), Heart - Atrial Appendage (x4.8), and Colon - Transverse (x4.0).

SOURCE GeneReport for Unigene cluster for SYNJ2-IT1 Gene:

genes like me logo Genes that share expression patterns with SYNJ2-IT1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , 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 SYNJ2-IT1 Gene

Orthologs for SYNJ2-IT1 Gene

Evolution for SYNJ2-IT1 Gene

Gene Tree for SYNJ2-IT1 (if available)
Gene Tree for SYNJ2-IT1 (if available)

No data available for Orthologs for SYNJ2-IT1 Gene

Paralogs for SYNJ2-IT1 Gene

No data available for Paralogs for SYNJ2-IT1 Gene

Variants for SYNJ2-IT1 Gene

Sequence variations from dbSNP and Humsavar for SYNJ2-IT1 Gene

SNP ID Clin Chr 06 pos Variation AA Info Type
rs1001196604 -- 157,999,777(+) T/C upstream_transcript_variant
rs1001240687 -- 157,999,466(+) C/T upstream_transcript_variant
rs1001988933 -- 158,002,632(+) G/T downstream_transcript_variant
rs1002655114 -- 158,000,425(+) C/T upstream_transcript_variant
rs1003402209 -- 158,002,391(+) T/C downstream_transcript_variant

Additional Variant Information for SYNJ2-IT1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Structural Variations from Database of Genomic Variants (DGV) and Variation tolerance for SYNJ2-IT1 Gene

Disorders for SYNJ2-IT1 Gene

Additional Disease Information for SYNJ2-IT1

No disorders were found for SYNJ2-IT1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SYNJ2-IT1 Gene

Publications for SYNJ2-IT1 Gene

No publications were found for SYNJ2-IT1 Gene.

Products for SYNJ2-IT1 Gene

Sources for SYNJ2-IT1 Gene

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