GgaINT0021382 @ galGal4
Intron Retention
Gene
ENSGALG00000006802 | LAMB2
Description
laminin subunit beta-2 precursor [Source:RefSeq peptide;Acc:NP_989497]
Coordinates
chr12:11548610-11548903:+
Coord C1 exon
chr12:11548610-11548689
Coord A exon
chr12:11548690-11548767
Coord C2 exon
chr12:11548768-11548903
Length
78 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
3' ss Seq
CGATGCGTTTGGGGTGCCAGGTG
3' ss Score
5.53
Exon sequences
Seq C1 exon
CCTGAACACTGGGCTCTCAGCCACGATCTCCCTGGCTGCCAGCCTTGTGAGTGTGACGTGGGAGGTGCCCACGACAACCA
Seq A exon
GTGAGTTTTGTCACAGCTCAGGGTGGAAGGGGCAATCCTTTAGCCCTGGGGGGGCTGACGATGCGTTTGGGGTGCCAG
Seq C2 exon
GTGTGCCATGGAGACGGGGCAGTGCCGGTGCCGCAGCCACATAGTGGGACGGCAGTGCGAGCAGGTGGAGCCCGGCTTCTACCGCATCAACCTGGACCACTACACCTACGAGGCCGAGGATGCCCGGCTGCACATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006802:ENSGALT00000036239:11
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(22.9=40.7)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(75.0=78.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTCAGCCACGATCTCCCTG
R:
GTAGTGGTCCAGGTTGATGCG
Band lengths:
170-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]