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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.

No data available for Entrez Gene 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

Regulatory Elements for SYNJ2-IT1 Gene

Enhancers for SYNJ2-IT1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH06F158847 1.9 FANTOM5 Ensembl ENCODE 16.2 +852.0 852015 11.2 CREB3L1 MLX FEZF1 YBX1 SLC30A9 ZNF548 MCM3 SP3 TBX21 MEF2D LOC442272 OSTCP1 ENSG00000238019 SYNJ2-IT1 LOC105378078 EZR SYTL3 RNU6-293P DYNLT1 TAGAP
GH06F158029 1.7 FANTOM5 Ensembl ENCODE 16.4 +30.4 30368 3.1 PKNOX1 ZFP64 FEZF1 ZNF2 GLIS2 FOS KLF7 ZNF263 TSHZ1 MBD2 SYNJ2 SYNJ2-IT1 LOC105378078 ENSG00000238019 LOC442272 OSTCP1 ENSG00000234361 SNX9 LDHAL6FP GC06M158055
GH06F157273 1.6 FANTOM5 Ensembl ENCODE 16.2 -726.1 -726119 3.6 ATF1 PKNOX1 SIN3A DMAP1 ZNF48 ZNF2 ZNF121 GLIS2 CBX5 ZNF143 TMEM242 LOC105378078 LOC105378073 SYNJ2-IT1 ENSG00000234361 ARID1B LDHAL6FP LOC105378075
GH06F158024 1.3 Ensembl ENCODE 16.4 +25.4 25394 4.8 WRNIP1 SIN3A FEZF1 ZNF2 ZNF416 ZNF143 FOS ZNF548 ZNF263 KAT8 SYNJ2-IT1 LOC105378078 ENSG00000238019 OSTCP1 LOC442272 SYNJ2 ENSG00000234361 LOC100420839 DYNLT1 RNU6-786P
GH06F157219 1.3 Ensembl ENCODE 16.2 -779.7 -779740 4.5 HDGF PKNOX1 ARNT MLX CREB3L1 ARID4B DMAP1 ZNF2 YY1 SLC30A9 LOC105378078 SYNJ2-IT1 LOC105378073 ENSG00000234361 ARID1B LOC105378075 ENSG00000233044
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

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

Genomic Location for SYNJ2-IT1 Gene

158,001,107 bp from pter
158,002,383 bp from pter
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

No data available for Molecular function , Enzyme Numbers (IUBMB) , 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 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

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:

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 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 and mRNA Expression by UniProt/SwissProt 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 Sequence Context AA Info Type
rs10682952 -- 158,001,104(+) TCCCC(-/CCCC/CCCCC/CCGC)AGCTC intron-variant, upstream-variant-2KB
rs111700302 -- 158,002,261(+) TTCCC(C/T)GCTCA intron-variant, nc-transcript-variant
rs111749459 -- 158,001,466(+) ATCTC(A/G)GCTCA intron-variant
rs112046617 -- 157,999,264(+) TGCCC(C/T)GTCTC intron-variant, upstream-variant-2KB
rs112341994 -- 158,001,585(+) AGTAG(A/G)GACGG intron-variant, nc-transcript-variant

Relevant External Links 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

Relevant External Links for SYNJ2-IT1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:

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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