HsaINT0090402 @ hg38
Intron Retention
Gene
ENSG00000172037 | LAMB2
Description
laminin subunit beta 2 [Source:HGNC Symbol;Acc:HGNC:6487]
Coordinates
chr3:49129020-49129324:-
Coord C1 exon
chr3:49129245-49129324
Coord A exon
chr3:49129153-49129244
Coord C2 exon
chr3:49129020-49129152
Length
92 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
3' ss Seq
AACCACAGAGTTCCCTCCAGGTG
3' ss Score
-0.52
Exon sequences
Seq C1 exon
CCTGGCCACTGGGGCCTGAGCCACGACCTGCTCGGCTGCCGCCCCTGTGACTGCGACGTGGGTGGTGCTTTGGATCCCCA
Seq A exon
GTAAGTGTTGTAAAGGGGGCCTGGGAAGGGATGGGGAAAGATCCTGAGCAGAAGAGAAGGTTCTTCTTGAGTAACCACAGAGTTCCCTCCAG
Seq C2 exon
GTGTGATGAGGGCACAGGTCAATGCCACTGCCGCCAGCACATGGTTGGGCGACGCTGTGAGCAGGTGCAACCTGGCTACTTCCGGCCCTTCCTGGACCACCTAATTTGGGAGGCTGAGGACACCCGAGGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000172037:ENST00000418109:13
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=PD(24.0=44.4),PF0005319=Laminin_EGF=PU(25.0=40.7)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(72.7=71.1)
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:
CCTGAGCCACGACCTGCTC
R:
GCCTCCCAAATTAGGTGGTCC
Band lengths:
180-272
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