HsaINT0090414 @ hg38
Intron Retention
Gene
ENSG00000172037 | LAMB2
Description
laminin subunit beta 2 [Source:HGNC Symbol;Acc:HGNC:6487]
Coordinates
chr3:49123728-49124286:-
Coord C1 exon
chr3:49124190-49124286
Coord A exon
chr3:49124101-49124189
Coord C2 exon
chr3:49123728-49124100
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:ENST00000418109:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.048
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(66.0=93.9)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=40.8),PF086146=ATG16=PU(60.4=74.4),PF041117=APG6=PU(51.6=64.8)
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