GgaINT0021401 @ galGal4
Intron Retention
Gene
ENSGALG00000006802 | LAMB2
Description
laminin subunit beta-2 precursor [Source:RefSeq peptide;Acc:NP_989497]
Coordinates
chr12:11553687-11554251:+
Coord C1 exon
chr12:11553687-11553828
Coord A exon
chr12:11553829-11553914
Coord C2 exon
chr12:11553915-11554251
Length
86 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGG
5' ss Score
10.38
3' ss Seq
CCGTCACCGCCTGTCTCCAGATG
3' ss Score
8.27
Exon sequences
Seq C1 exon
GGCACGGGCGGAGGGCGTGCGGGGCACAGCTGAAGCAGTGCAGCAGGCACTGGAGGAGGCGCGGCAAGCACAGGGCGCAGCCGGGCAGGCGCTGCACAGCACTGCTGCTGACATCCAGCACAGCGAGCACACCATCGGCACG
Seq A exon
GTAAGGGCACCCTCTGCTGCCATTGCTCCGGGCAGCCCTGTTGCCTGTCCCCGCCACGGGAACACCCCGTCACCGCCTGTCTCCAG
Seq C2 exon
ATGCGGGCGCAGACGCTGGGTGCGGAGCAGCAGCTGGCTGCCGCCACGGAGCGGCTCGGTCTCCTGGAGGGACAGACGGACGCCCTGAAGGTGAAGCGTGCCAACAACAGCCTGGCGGCCACGCGTGCCCATGACGCGGCTGGCATCGCGCGGGACCGTGCCAGTGAAGCCAAGCAGGTGCTGGAGGGGCCGCTGAAGGACCGGTACCGGGCAGCCCAGGAGCTGGTGCAGCACCGGGCGCAGGGAGCGCAGCAGGCAGGCGGCCGGGCCCAGCAGCTGCGCGAGGAGGCCGCCGGGCTGCTGCAGGATGCCCAGGGCAAGCTGCAGAAGCTGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006802:ENSGALT00000036239:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.655
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CTGAAGCAGTGCAGCAGGC
R:
CCTCCAGGAGACCGAGCC
Band lengths:
183-269
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]