HsaINT0090414 @ hg19
Intron Retention
Gene
ENSG00000172037 | LAMB2
Description
laminin, beta 2 (laminin S) [Source:HGNC Symbol;Acc:6487]
Coordinates
chr3:49161161-49161719:-
Coord C1 exon
chr3:49161623-49161719
Coord A exon
chr3:49161534-49161622
Coord C2 exon
chr3:49161161-49161533
Length
89 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGG
5' ss Score
7.61
3' ss Seq
TGCTCTGCTCTTTCTTGCAGCCT
3' ss Score
11.29
Exon sequences
Seq C1 exon
TTCACAGGGCAGTGCCACTGCCGTGCCGGCTTTGGAGGGCGGACTTGTTCTGAGTGCCAAGAGCTCCACTGGGGAGACCCTGGGTTGCAGTGCCATG
Seq A exon
GTGAGGGAGCCAGCGGGGCCAGGGTAGATGGAGGACTTCCCAGAATGCCCCACAGTGACCCTAACTCTGTGCTCTGCTCTTTCTTGCAG
Seq C2 exon
CCTGTGATTGTGACTCTCGTGGAATAGATACACCTCAGTGTCACCGCTTCACAGGTCACTGCAGCTGCCGCCCAGGGGTGTCTGGTGTGCGCTGTGACCAGTGTGCCCGTGGCTTCTCAGGAATCTTTCCTGCCTGCCATCCCTGCCATGCATGCTTCGGGGATTGGGACCGAGTGGTGCAGGACTTGGCAGCCCGTACACAGCGCCTAGAGCAGCGGGCGCAGGAGTTGCAACAGACGGGTGTGCTGGGTGCCTTTGAGAGCAGCTTCTGGCACATGCAGGAGAAGCTGGGCATTGTGCAGGGCATCGTAGGTGCCCGCAACACCTCAGCCGCCTCCACTGCACAGCTTGTGGAGGCCACAGAGGAGCTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000172037-LAMB2:NM_002292:23
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.088
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(66.0=93.9)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=40.8),PF041117=APG6=PU(51.6=64.8),PF086146=ATG16=PU(60.4=74.4)
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:
GTTCTGAGTGCCAAGAGCTCC
R:
AGATTCCTGAGAAGCCACGGG
Band lengths:
177-266
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)