GgaINT1016549 @ galGal4
Intron Retention
Gene
ENSGALG00000006802 | LAMB2
Description
laminin subunit beta-2 precursor [Source:RefSeq peptide;Acc:NP_989497]
Coordinates
chr12:11547646-11548077:+
Coord C1 exon
chr12:11547646-11547766
Coord A exon
chr12:11547767-11547888
Coord C2 exon
chr12:11547889-11548077
Length
122 bp
Sequences
Splice sites
5' ss Seq
GCCGTGAGT
5' ss Score
8.56
3' ss Seq
CAGGGGCGCCGTCCTCGCAGGGT
3' ss Score
6.34
Exon sequences
Seq C1 exon
GTGCACGGGCGCTGTGTCTGCAAGCACCACACGCAGGGGCTGAACTGTGAGCGCTGCGAGGACTTCTACCACGAGCTGCCCTGGCGCCCGGCTGAGGGCTCCAGCACCAACGCCTGCCGCC
Seq A exon
GTGAGTGCCACGTGCCTGCAGCCGGCACGGCGCGGGGCCATGGGGTCCCGCACTGCACGCTGGGGCTTGGGGTCCTGCGTGCGGTGGGTCGGGGTCGGGTACCAGGGGCGCCGTCCTCGCAG
Seq C2 exon
GGTGCGACTGCAACGAGCACTCACGGCGCTGCCACTTCGACATGGCCGTGTTCCTGGCCACCGGGAATACCAGCGGGGCCGTGTGCGACGGCTGCCAGCACAACACCATGGGGCGCCGCTGCCACCTCTGCAAGCCCTTCTACTACAAGGATCCCAGCAAGGACCTTCGGGATCCAGCCGTGTGCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006802:ENSGALT00000036239:7
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(61.3=92.7)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=95.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGTCTGCAAGCACCACA
R:
AGTAGAAGGGCTTGCAGAGGT
Band lengths:
254-376
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]