HsaINT0090420 @ hg19
Intron Retention
Gene
ENSG00000172037 | LAMB2
Description
laminin, beta 2 (laminin S) [Source:HGNC Symbol;Acc:6487]
Coordinates
chr3:49159117-49159518:-
Coord C1 exon
chr3:49159377-49159518
Coord A exon
chr3:49159294-49159376
Coord C2 exon
chr3:49159117-49159293
Length
83 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CTTTGGCTCACCCATGGCAGGTA
3' ss Score
6.87
Exon sequences
Seq C1 exon
GAGCTGGGCTGAGGATGAGAAACAGAAGGCAGAGACAGTACAGGCAGCACTGGAGGAGGCCCAGCGGGCACAGGGTATTGCCCAGGGTGCCATCCGGGGGGCAGTGGCTGACACACGGGACACAGAGCAGACCCTGTACCAG
Seq A exon
GTGAGGTCTTCCTAGGACATCAGTGGGACAAGGTTATGGGCATGAACCGTAGATCTGTGTAACCTTTGGCTCACCCATGGCAG
Seq C2 exon
GTACAGGAGAGGATGGCAGGTGCAGAGCGGGCACTGAGCTCTGCAGGTGAAAGGGCTCGGCAGTTGGATGCTCTCCTGGAGGCTCTGAAATTGAAACGGGCAGGAAATAGTCTGGCAGCCTCTACAGCAGAAGAAACGGCAGGCAGTGCCCAGGGTCGTGCCCAGGAGGCTGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000172037-LAMB2:NM_002292:29
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.610 A=NA C2=0.567
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGGCAGAGACAGTACAGGCA
R:
CCTTTCACCTGCAGAGCTCAG
Band lengths:
171-254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)