HsaINT0090401 @ hg38
Intron Retention
Gene
ENSG00000172037 | LAMB2
Description
laminin subunit beta 2 [Source:HGNC Symbol;Acc:HGNC:6487]
Coordinates
chr3:49129245-49129716:-
Coord C1 exon
chr3:49129604-49129716
Coord A exon
chr3:49129325-49129603
Coord C2 exon
chr3:49129245-49129324
Length
279 bp
Sequences
Splice sites
5' ss Seq
CTGGTGCGA
5' ss Score
5.2
3' ss Seq
CAGCAACTCCTTTCGTGCAGCCT
3' ss Score
3.71
Exon sequences
Seq C1 exon
GATGTCAATGTAATGCACGGGGCACAGTGCCTGGGAGCACTCCTTGTGACCCCAACAGTGGATCCTGTTACTGCAAACGTCTAGTGACTGGACGTGGATGTGACCGCTGCCTG
Seq A exon
GTGCGACTGGAAGGGGCTGGAGTTCTAGGGGCATGATTTGTCCTTAGAGCACAGGGCTGGGGTGTCACATCTATGCCAGTGGGTGGGTGCTGAGAGCTTAGGATCCAGTCCTGGCTGAGAAGCCTCAGGTCTGGGAGGCCAAGGATGTGGGCCAGTGGTCTGGGGGGCATGTTTTCACTGAGGGGTGATTGAGGCTAAGACGTGTGGTTGGGATTTCCTGCTGGGTGGTGATGGGGTCTGGAGGTCTGTTTCTGGCCCCCAGCAACTCCTTTCGTGCAG
Seq C2 exon
CCTGGCCACTGGGGCCTGAGCCACGACCTGCTCGGCTGCCGCCCCTGTGACTGCGACGTGGGTGGTGCTTTGGATCCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000172037:ENST00000418109:12
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=PU(72.0=94.7)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(24.0=44.4),PF0005319=Laminin_EGF=PU(25.0=40.7)
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:
TGTCAATGTAATGCACGGGGC
R:
GGATCCAAAGCACCACCCAC
Band lengths:
188-467
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development