Transcript: HAGLR:16

Basic information

LNCipedia transcript ID: HAGLR:16 
HGNC Gene Symbol: HAGLR    
HGNC Full Gene Name: HOXD antisense growth-associated long non-coding RNA
Ensembl Gene ID: ENSG00000224189
Ensembl Transcript ID: ENST00000416928
RefSeq ID: NR_110458
Location (hg38): chr2:176173189-176178129
Strand: -
Class: intergenic
Sequence Ontology term: lincRNA
Transcript size: 4086 bp
Exons: 3
Sources: Refseq - Dec 2014; Ensembl release 92 - Apr 2018; Refseq - NCBI Annotation Release 106
Alternative transcript names: NR_110458; NR_110458.1; ENST00000416928.7
Alternative gene names: Mdgt; HAGLR; ENSG00000224189.7


RNA sequence:

Structure:

Protein coding potential

Metric Raw result Interpretation
PRIDE reprocessing 2.0 0 non-coding 
Lee translation initiation sites 0 non-coding 
PhyloCSF score -54.1911 non-coding 
CPAT coding probability 4.48% non-coding 
Bazzini small ORFs 0 non-coding 

In stringent set: yes

Locus conservation

Locus conservation?
HAGLR:16 no no no no

Available literature

  1. Wang (2015), Genome-wide differential expression of synaptic long noncoding RNAs in autism spectrum disorder., Transl Psychiatry
  2. Li (2014), starBase v2.0: decoding miRNA-ceRNA, miRNA-ncRNA and protein-RNA interaction networks from large-scale CLIP-Seq data., Nucleic Acids Res.
  3. Yarmishyn (2014), HOXD-AS1 is a novel lncRNA encoded in HOXD cluster and a marker of neuroblastoma progression revealed via integrative analysis of noncoding transcriptome., BMC Genomics
  4. Batagov (2013), Role of genomic architecture in the expression dynamics of long noncoding RNAs during differentiation of human neuroblastoma cells., BMC Syst Biol
  5. Sauvageau (2013), Multiple knockout mouse models reveal lincRNAs are required for life and brain development., Elife


LNCipedia transcript ID history

LNCipedia version LNCipedia transcript ID
3.1 lnc-AC009336.1-2:27
4.0 HAGLR:16
4.1 HAGLR:16
5.0 HAGLR:16
5.1 HAGLR:16
5.2 HAGLR:16