Aliases for LINC01397 Gene

Subcategory (RNA class) for LINC01397 Gene

lncRNA

Number of RNA Genes sources:

3 / 17

Aliases for LINC01397 Gene

  • Long Intergenic Non-Protein Coding RNA 1397 2 3 5
  • LINC01397 2 5 165
  • NONHSAG002368.2 91
  • HSALNG0005949 164

External Ids for LINC01397 Gene

Previous GeneCards Identifiers for LINC01397 Gene

  • GC01P110083
  • GC01P110102
  • GC01P110108
  • GC01P110109
  • GC01P110120
  • GC01P110085
  • GC01P110089
  • GC01P110094
  • GC01P110099

Summaries for LINC01397 Gene

GeneCards Summary for LINC01397 Gene

LINC01397 (Long Intergenic Non-Protein Coding RNA 1397) is an RNA Gene, and is affiliated with the lncRNA class.

Additional gene information for LINC01397 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 LINC01397 Gene

Genomics for LINC01397 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for LINC01397 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
GH01J110082 Promoter 0.6 EPDnew 600.7 +0.4 445 0.1 ZIC2 EZH2 CEBPG ZFP69B ATF4 PTTG1 LINC01397 lnc-STRIP1-2 ALX3 UBL4B
GH01J110083 Enhancer 0.8 FANTOM5 ENCODE 0.7 +2.3 2278 1.8 RNF2 ZNF512 BACH1 PRDM1 POLR2A IRF2 EZH2 EED BCLAF1 MBD1 lnc-STRIP1-2 STRIP1 LINC01397 ALX3 UBL4B
GH01J110087 Enhancer 0.9 Ensembl CraniofacialAtlas 0.4 +6.9 6892 2.6 CTCF PKNOX1 PATZ1 REST NR2C1 RAD21 MNT NR2C2 SMC3 ZKSCAN1 UBL4B STRIP1 LINC01397 lnc-STRIP1-2 ALX3 lnc-ALX3-5
GH01J110097 Enhancer 1 Ensembl ENCODE CraniofacialAtlas 0.4 +16.2 16158 2.3 ATF7 ZNF512 ZIC2 ZNF341 CTBP1 CEBPB NR2C2 ESRRA MAZ WT1 STRIP1 UBL4B lnc-STRIP1-2 LINC01397 ALX3 lnc-ALX3-5
GH01J110070 Promoter 0.8 EPDnew Ensembl 0.4 -11.5 -11529 0.2 EZH2 USF1 ALX3 LINC01397 STRIP1 UBL4B
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LINC01397 on the GeneHancer Hub at the UCSC Golden Path

Genomic Locations for LINC01397 Gene

Genomic Locations for LINC01397 Gene
chr1:110,082,230-110,110,239
(GRCh38/hg38)
Size:
28,010 bases
Orientation:
Plus strand
chr1:110,625,310-110,652,341
(GRCh37/hg19)
Size:
27,032 bases
Orientation:
Plus strand

Genomic View for LINC01397 Gene

Genes around LINC01397 on UCSC Golden Path with GeneCards custom track
LINC01397 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Cytogenetic band:
LINC01397 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LINC01397 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LINC01397 Gene

Proteins for LINC01397 Gene

Post-translational modifications for LINC01397 Gene

No Post-translational modifications

No data available for DME Specific Peptides for LINC01397 Gene

Domains & Families for LINC01397 Gene

Gene Families for LINC01397 Gene

genes like me logo Genes that share domains with LINC01397: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LINC01397 Gene

Function for LINC01397 Gene

Phenotypes From GWAS Catalog for LINC01397 Gene

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 LINC01397 Gene

Localization for LINC01397 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 LINC01397 Gene

Pathways & Interactions for LINC01397 Gene

PathCards logo

SuperPathways for LINC01397 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LINC01397 Gene

None

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for LINC01397 Gene

Drugs & Compounds for LINC01397 Gene

No Compound Related Data Available

Transcripts for LINC01397 Gene

Non-coding RNA (ncRNA) Transcripts from RNAcentral for LINC01397 Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS00000ED31F_9606 lncRNA 579 6

HGNC: 50677,

RefSeq: NR_126382,

Ensembl: ENST00000554808 (view in UCSC) ,

LncBook: HSALNT0012327,

LNCipedia: LINC01397:3,

NONCODE: NONHSAT005095.2,

URS00008C2D89_9606 lncRNA 1561 3

LncBook: HSALNT0012324,

LNCipedia: LINC01397:1,

NONCODE: NONHSAT005093.2,

URS00008BF9A2_9606 lncRNA 377 3

LncBook: HSALNT0012330,

LNCipedia: LINC01397:5,

NONCODE: NONHSAT005096.2,

URS00008BD1BD_9606 lncRNA 604 2

LNCipedia: LINC01397:2,

NONCODE: NONHSAT005094.2,

URS00009BCAAC_9606 lncRNA 258 2

LncBook: HSALNT0012328,

NONCODE: NONHSAT149531.1,

LINC01397 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for LINC01397 Gene

1 NCBI additional mRNA sequence :

Alternative Splicing Database (ASD) splice patterns (SP) for LINC01397 Gene

No ASD Table

Relevant External Links for LINC01397 Gene

GeneLoc Exon Structure for
LINC01397

Expression for LINC01397 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LINC01397 Gene

genes like me logo Genes that share expression patterns with LINC01397: 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 LINC01397 Gene

Orthologs for LINC01397 Gene

Evolution for LINC01397 Gene

ENSEMBL:
Gene Tree for LINC01397 (if available)
TreeFam:
Gene Tree for LINC01397 (if available)

No data available for Orthologs for LINC01397 Gene

Paralogs for LINC01397 Gene

No data available for Paralogs for LINC01397 Gene

Variants for LINC01397 Gene

Additional dbSNP identifiers (rs#s) for LINC01397 Gene

Additional Variant Information for LINC01397 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LINC01397

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 LINC01397 Gene

Disorders for LINC01397 Gene

No disorders were found for LINC01397 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LINC01397 Gene

Publications for LINC01397 Gene

  1. 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

Products for LINC01397 Gene

Sources for LINC01397 Gene