NEGR1-IT1 Gene (RNA Gene)

NEGR1 Intronic Transcript 1

GC01M071794
GIFtS:
12
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Aliases for NEGR1-IT1 Gene

Subcategory (RNA class) for NEGR1-IT1 Gene

lncRNA

Number of RNA Genes sources:

3 / 17

Aliases for NEGR1-IT1 Gene

  • NEGR1 Intronic Transcript 1 2 3 5
  • NEGR1-IT1 2 5 165
  • NEGR1 Intronic Transcript 1 (Non-Protein Coding) 2 3
  • NONHSAG001818.2 91
  • HSALNG0004417 164

External Ids for NEGR1-IT1 Gene

Previous GeneCards Identifiers for NEGR1-IT1 Gene

  • GC01M072260

Summaries for NEGR1-IT1 Gene

GeneCards Summary for NEGR1-IT1 Gene

NEGR1-IT1 (NEGR1 Intronic Transcript 1) is an RNA Gene, and is affiliated with the lncRNA class.

Additional gene information for NEGR1-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 NEGR1-IT1 Gene

Genomics for NEGR1-IT1 Gene

GeneHancer (GH) Regulatory Elements Pubs

Download GeneHancer 2017 data
Promoters and enhancers for NEGR1-IT1 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
GH01J071834 Enhancer 0.4 Ensembl 600.7 +1.9 1912 1 NFIC NFIB GATA2 SPI1 NEGR1-IT1 piR-32470-003 NEGR1 ZRANB2
GH01J071836 Enhancer 0.2 Ensembl 600.7 -0.2 -188 1.2 NEGR1-IT1 piR-46002-027 NEGR1 ZRANB2
GH01J071860 Enhancer 0.5 Ensembl 0.4 -24.2 -24188 0.8 JUND CEBPB FOS JUN CREB1 NEGR1-IT1 piR-46002-027 NEGR1 ZRANB2
GH01J071881 Enhancer 0.6 Ensembl ENCODE 0.3 -45.1 -45088 2.2 POLR2A SPI1 MAX piR-46002-027 NEGR1-IT1 NEGR1 ZRANB2
GH01J071828 Enhancer 0.3 Ensembl 0.4 +8.2 8212 0.8 POLR2A NEGR1-IT1 piR-32470-003 NEGR1 ZRANB2
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around NEGR1-IT1 on the GeneHancer Hub at the UCSC Golden Path

Genomic Locations for NEGR1-IT1 Gene

Genomic Locations for NEGR1-IT1 Gene
chr1:71,794,232-71,837,013
(GRCh38/hg38)
Size:
42,782 bases
Orientation:
Minus strand
chr1:72,259,915-72,302,695
(GRCh37/hg19)
Size:
42,781 bases
Orientation:
Minus strand

Genomic View for NEGR1-IT1 Gene

Genes around NEGR1-IT1 on UCSC Golden Path with GeneCards custom track
NEGR1-IT1 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Cytogenetic band:
NEGR1-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 NEGR1-IT1 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for NEGR1-IT1 Gene

Proteins for NEGR1-IT1 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

Post-translational modifications for NEGR1-IT1 Gene

No Post-translational modifications

No data available for DME Specific Peptides for NEGR1-IT1 Gene

Domains & Families for NEGR1-IT1 Gene

Gene Families for NEGR1-IT1 Gene

HGNC:
genes like me logo Genes that share domains with NEGR1-IT1: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for NEGR1-IT1 Gene

Function for NEGR1-IT1 Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line

Phenotypes From GWAS Catalog for NEGR1-IT1 Gene

Animal Model Products

CRISPR 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 NEGR1-IT1 Gene

Localization for NEGR1-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 NEGR1-IT1 Gene

Pathways & Interactions for NEGR1-IT1 Gene

PathCards logo

SuperPathways for NEGR1-IT1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for NEGR1-IT1 Gene

None

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for NEGR1-IT1 Gene

Drugs & Compounds for NEGR1-IT1 Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for NEGR1-IT1 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

Non-coding RNA (ncRNA) Transcripts from RNAcentral for NEGR1-IT1 Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS0000264AAF_9606 lncRNA 534 4

Ensembl: ENST00000453121 (view in UCSC) ,

LncBook: HSALNT0008850,

LNCipedia: NEGR1-IT1:1,

NONCODE: NONHSAT003909.2,

URS000075C659_9606 lncRNA 534 2

HGNC: 41432,

RefSeq: NR_046218,

URS00009BEFB0_9606 lncRNA 534 2

LncBook: HSALNT0008851,

NONCODE: NONHSAT151775.1,

NEGR1-IT1 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for NEGR1-IT1 Gene

1 NCBI additional mRNA sequence :

CRISPR Products

Alternative Splicing Database (ASD) splice patterns (SP) for NEGR1-IT1 Gene

No ASD Table

Relevant External Links for NEGR1-IT1 Gene

GeneLoc Exon Structure for
NEGR1-IT1

Expression for NEGR1-IT1 Gene

Products:

  1. Primer
  2. Gene Expression Assay

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for NEGR1-IT1 Gene

mRNA expression in normal human tissues for NEGR1-IT1 Gene
mRNA expression by GTEx for NEGR1-IT1 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for NEGR1-IT1

SOURCE GeneReport for Unigene cluster for NEGR1-IT1 Gene:

Hs.681780
genes like me logo Genes that share expression patterns with NEGR1-IT1: view

No data available for 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 NEGR1-IT1 Gene

Orthologs for NEGR1-IT1 Gene

Evolution for NEGR1-IT1 Gene

ENSEMBL:
Gene Tree for NEGR1-IT1 (if available)
TreeFam:
Gene Tree for NEGR1-IT1 (if available)

No data available for Orthologs for NEGR1-IT1 Gene

Paralogs for NEGR1-IT1 Gene

No data available for Paralogs for NEGR1-IT1 Gene

Variants for NEGR1-IT1 Gene

Products:

  1. SNP Genotyping and Copy Number Assay

Additional dbSNP identifiers (rs#s) for NEGR1-IT1 Gene

Structural Variations from Database of Genomic Variants (DGV) for NEGR1-IT1 Gene

Variant ID Type Subtype PubMed ID
esv2762150 CNV loss 21179565
esv3893668 CNV loss 25118596
nsv1008210 CNV loss 25217958
nsv830181 CNV gain 17160897

Additional Variant Information for NEGR1-IT1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
NEGR1-IT1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP and Variation tolerance for NEGR1-IT1 Gene

Disorders for NEGR1-IT1 Gene

Additional Disease Information for NEGR1-IT1

ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for NEGR1-IT1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for NEGR1-IT1 Gene

Publications for NEGR1-IT1 Gene

  1. Association of systemic lupus erythematosus with C8orf13-BLK and ITGAM-ITGAX. (PMID: 18204098) Hom G … Behrens TW (The New England journal of medicine 2008) 3
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg RL … Mammalian Gene Collection Program Team (Proceedings of the National Academy of Sciences of the United States of America 2002) 3

No data available for Mastermind for NEGR1-IT1 Gene

Products for NEGR1-IT1 Gene

Sources for NEGR1-IT1 Gene