HsaINT0090429 @ hg38
Intron Retention
Gene
ENSG00000172037 | LAMB2
Description
laminin subunit beta 2 [Source:HGNC Symbol;Acc:HGNC:6487]
Coordinates
chr3:49129839-49130419:-
Coord C1 exon
chr3:49130231-49130419
Coord A exon
chr3:49130019-49130230
Coord C2 exon
chr3:49129839-49130018
Length
212 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGG
5' ss Score
2.85
3' ss Seq
GTATCTCTTTTTGCCGTCAGCCT
3' ss Score
3.96
Exon sequences
Seq C1 exon
AGTGTGAGTGCCATGGGCACACCCACAGCTGCCACTTCGACATGGCCGTATACCTGGCATCTGGCAATGTGAGTGGAGGTGTGTGTGATGGATGTCAGCATAACACAGCTGGGCGCCACTGTGAGCTCTGTCGGCCCTTCTTCTACCGTGACCCAACCAAGGACCTGCGGGATCCGGCTGTGTGCCGCT
Seq A exon
GTGAGGCTGGGATTGGGCACGGGGAGAGAAAGCTGAGCCTGGGGCAGGAACTAGAGAGCTGGACTGCTGTCTAAATTGCAGGAAATTGGGGTTAGGGGCTTGGGATAGAACTTGACCAGGGATCCAGGGTGGGATCCCTTAGGCTTAGGAGAGGACTGGCAGTGAGCTAGTTGAGATAGGGTGAGTGACCCTGTATCTCTTTTTGCCGTCAG
Seq C2 exon
CCTGTGATTGTGACCCCATGGGTTCTCAAGACGGTGGTCGCTGTGATTCCCATGATGACCCTGCACTGGGACTGGTCTCCGGCCAGTGTCGCTGCAAAGAACATGTGGTGGGCACTCGCTGCCAGCAATGCCGTGATGGCTTCTTTGGGCTCAGCATCAGTGACCGTCTGGGCTGCCGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000172037:ENST00000418109:10
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=0.000
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=WD(100=95.3)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=95.1)
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:
GCATCTGGCAATGTGAGTGGA
R:
GTCACTGATGCTGAGCCCAAA
Band lengths:
297-509
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