HsaINT0090415 @ hg38
Intron Retention
Gene
ENSG00000172037 | LAMB2
Description
laminin subunit beta 2 [Source:HGNC Symbol;Acc:HGNC:6487]
Coordinates
chr3:49123447-49124100:-
Coord C1 exon
chr3:49123728-49124100
Coord A exon
chr3:49123632-49123727
Coord C2 exon
chr3:49123447-49123631
Length
96 bp
Sequences
Splice sites
5' ss Seq
GCGGTGCGG
5' ss Score
6.09
3' ss Seq
CCCCCTCTCCATCATTGCAGGCG
3' ss Score
10.88
Exon sequences
Seq C1 exon
CCTGTGATTGTGACTCTCGTGGAATAGATACACCTCAGTGTCACCGCTTCACAGGTCACTGCAGCTGCCGCCCAGGGGTGTCTGGTGTGCGCTGTGACCAGTGTGCCCGTGGCTTCTCAGGAATCTTTCCTGCCTGCCATCCCTGCCATGCATGCTTCGGGGATTGGGACCGAGTGGTGCAGGACTTGGCAGCCCGTACACAGCGCCTAGAGCAGCGGGCGCAGGAGTTGCAACAGACGGGTGTGCTGGGTGCCTTTGAGAGCAGCTTCTGGCACATGCAGGAGAAGCTGGGCATTGTGCAGGGCATCGTAGGTGCCCGCAACACCTCAGCCGCCTCCACTGCACAGCTTGTGGAGGCCACAGAGGAGCTGCG
Seq A exon
GTGCGGAAGGGCCTAAGAATACATGGTGGGATGGGGCAGAGGCCCAGTGGACCAGGGCTGAAGCCTCTCTAAACACCCCCCTCTCCATCATTGCAG
Seq C2 exon
GCGTGAAATTGGGGAGGCCACTGAGCACCTGACTCAGCTCGAGGCAGACCTGACAGATGTGCAAGATGAGAACTTCAATGCCAACCATGCACTAAGTGGTCTGGAGCGAGATAGGCTTGCACTTAATCTCACACTGCGGCAGCTCGACCAGCATCTTGACTTGCTCAAACATTCAAACTTCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000172037:ENST00000418109:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=NA C2=0.254
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=WD(100=40.8),PF086146=ATG16=PU(60.4=74.4),PF041117=APG6=PU(51.6=64.8)
A:
NA
C2:
PF086146=ATG16=PD(39.0=95.2),PF041117=APG6=FE(39.5=100)
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:
TTTGAGAGCAGCTTCTGGCAC
R:
TTGCACATCTGTCAGGTCTGC
Band lengths:
183-279
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