GgaINT0021388 @ galGal4
Intron Retention
Gene
ENSGALG00000006802 | LAMB2
Description
laminin subunit beta-2 precursor [Source:RefSeq peptide;Acc:NP_989497]
Coordinates
chr12:11549985-11550449:+
Coord C1 exon
chr12:11549985-11550128
Coord A exon
chr12:11550129-11550217
Coord C2 exon
chr12:11550218-11550449
Length
89 bp
Sequences
Splice sites
5' ss Seq
GACGTGAGT
5' ss Score
9.22
3' ss Seq
GATACTTTGATGCCTTGCAGCCT
3' ss Score
6.65
Exon sequences
Seq C1 exon
CCTGCCTCTGCGACCCGCAGGGCTTGCTCAGCGCCGAGTGCCAACCCCAGGGCGGGCAGTGCCGCTGCAAGCCCAACGTCGTGGGACGGCGCTGCCACCGCTGCTCCCCGGGCACCTTCGGCTTCGGGCCCGGCGGGTGCCGAC
Seq A exon
GTGAGTGCCTATCCAGAGCAGTGGATGCAGGGAGAGGTGCTCCCTGCTTGCCAGGGTCTTCAACACATAGATACTTTGATGCCTTGCAG
Seq C2 exon
CCTGCCAGTGCAGTGGTGAGGGATCGCTGAGTGCCGTGTGCGACACCATCACAGGGCAGTGCCCCTGCCGCCAGGGTGCCCACGGCTCACGCTGCGACCGCTGCCAGCCGGGCCACTGGGGCTTCCCCACCTGCCGGCCCTGCCAGTGCAACGGGCACGCCGAGGAGTGCGACCCACAGACGGGCAGCTGCCTGCGCTGCCGCGACCACACGGACGGCGAGAGGTGCCAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006802:ENSGALT00000036239:17
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=93.9)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=59.0),PF0005319=Laminin_EGF=PU(62.5=38.5)
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:
CTTGCTCAGCGCCGAGTG
R:
CACTGCCCTGTGATGGTGTC
Band lengths:
183-272
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]