HsaINT0076959 @ hg19
Intron Retention
Gene
ENSG00000122566 | HNRNPA2B1
Description
heterogeneous nuclear ribonucleoprotein A2/B1 [Source:HGNC Symbol;Acc:5033]
Coordinates
chr7:26236427-26237081:-
Coord C1 exon
chr7:26236935-26237081
Coord A exon
chr7:26236638-26236934
Coord C2 exon
chr7:26236427-26236637
Length
297 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
TTACCCCACCACTATTTTAGGAA
3' ss Score
9.03
Exon sequences
Seq C1 exon
GTAATGAGGGATCCTGCAAGCAAAAGATCAAGAGGATTTGGTTTTGTAACTTTTTCATCCATGGCTGAGGTTGATGCTGCCATGGCTGCAAGACCTCATTCAATTGATGGGAGAGTAGTTGAGCCAAAACGTGCTGTAGCAAGAGAG
Seq A exon
GTAAGCAAACAATGACTGTCTTGTGCATTAACATGAAGAACGCTGCCCTGCTGAAAATCAGAAACTATTTCTGAATTTAGTTTTAACTCAAGATTTTTTCTCTTATTAAAGGTGTGTTGGGTTTCTGGACCATTTTCTTAAGCTAGCTTATTTTTCAAAAGCTAGGTCCCTAAAAGCTATTTTATATCTGGTAGTTTTAAGGTGGATACAAGCGAAGTATGGTACTACGGTTGGGTGCTTTGAATTATGCTTGTGTTTTTTTCTGTTTGGATGACTTTTACCCCACCACTATTTTAG
Seq C2 exon
GAATCTGGAAAACCAGGGGCTCATGTAACTGTGAAGAAGCTGTTTGTTGGCGGAATTAAAGAAGATACTGAGGAACATCACCTTAGAGATTACTTTGAGGAATATGGAAAAATTGATACCATTGAGATAATTACTGATAGGCAGTCTGGAAAGAAAAGAGGCTTTGGCTTTGTTACTTTTGATGACCATGATCCTGTGGATAAAATCGTAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000122566-HNRNPA2B1:NM_002137:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.245 A=NA C2=0.155
Domain overlap (PFAM):
C1:
PF142591=RRM_6=PD(57.1=81.6)
A:
NA
C2:
PF0007617=RRM_1=PU(81.4=80.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGGGATCCTGCAAGCAAAA
R:
AGCCTCTTTTCTTTCCAGACTGC
Band lengths:
306-603
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)