Aliases for SYNJ2-IT1 Gene

Subcategory (RNA class) for SYNJ2-IT1 Gene


Number of RNA Genes sources:

3 / 14

Aliases for SYNJ2-IT1 Gene

  • SYNJ2 Intronic Transcript 1 2 3 5
  • SYNJ2 Intronic Transcript 1 (Non-Protein Coding) 2 3
  • SYNJ2-IT1 2 168
  • HSALNG0054660 167
  • NONHSAG045253 92

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 lncRNA class.

Additional gene information for SYNJ2-IT1 Gene

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification 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
GH06J157999 Enhancer 0.8 ENCODE dbSUPER 500.7 -1.6 -1610 0.8 NCOR1 ZIC2 SAP130 MXD4 RXRA RAD21 MXI1 TFAP4 HNF4A AGO2 ENSG00000285642 SYNJ2-IT1 SYNJ2
GH06J158000 Enhancer 0.4 dbSUPER 500.7 -0.6 -646 0.3 NCOR1 FOXA1 SCRT2 ENSG00000285642 SYNJ2-IT1 SYNJ2
GH06J158917 Enhancer 1 Ensembl ENCODE 5.3 +916.5 916494 1.6 TRIM28 CTBP1 TEAD1 ATF2 NFIC ZBTB17 ZNF184 TRIM24 CEBPG MAX C6orf99 SYNJ2-IT1 ENSG00000213076 LOC442272 piR-56037-043
GH06J158001 Promoter/Enhancer 1.8 FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 0.7 +2.2 2203 3.4 ZNF217 GTF2E2 ZBTB11 ZBTB25 HINFP ATF2 CTBP1 NR2F2 RELA ZNF592 SYNJ2 SYNJ2-IT1 RF00017-5906
GH06J158007 Promoter/Enhancer 1.5 Ensembl ENCODE dbSUPER 0.4 +9.3 9258 5.1 EP300 FOXK2 POLR2G SP1 NCOR1 FOS ZIC2 REST KDM6A TCF7 SYNJ2 RNU6-786P GTF2H5 RSPH3 RF00017-5906 SYNJ2-IT1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

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

Genomic Locations for SYNJ2-IT1 Gene

Genomic Locations for SYNJ2-IT1 Gene
1,278 bases
Plus strand
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

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

Function for SYNJ2-IT1 Gene

Animal Model Products

CRISPR 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

PathCards logo

SuperPathways for SYNJ2-IT1 Gene

No Data Available

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


No data available for Pathways by source , Interacting Proteins 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

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

CRISPR 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

Expression for SYNJ2-IT1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and 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

Additional dbSNP identifiers (rs#s) for SYNJ2-IT1 Gene

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