GgaINT0036784 @ galGal4
Intron Retention
Gene
ENSGALG00000004627 | LAMC2
Description
laminin, gamma 2 [Source:HGNC Symbol;Acc:HGNC:6493]
Coordinates
chr8:7510650-7511268:+
Coord C1 exon
chr8:7510650-7510839
Coord A exon
chr8:7510840-7511155
Coord C2 exon
chr8:7511156-7511268
Length
316 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACG
5' ss Score
7.66
3' ss Seq
CCACCTGTCCCCATGTGCAGGTT
3' ss Score
10.01
Exon sequences
Seq C1 exon
CCAAATTCCTCGGGAACCAACAGCTGAGCTATGGCCAGACGCTCTCCTTCGATTACCGCCTGGACCGAGGGGGACGGCTGCCTTCTCCGCATGACGTGATCCTGGAAGGAGGTGGTCTCCGAGTCACTGCCCCCTTCTTACCCTCTGGGAAGGTCCTGCCCTGTGGTGTCAGCCAGACCTACACCTTCAG
Seq A exon
GTGACGGGGTGCTTGGGATTGTGGAAAGAGAGTCTTTGTGAGCTTGTGGATTCAGTGATTGTCCCTCAGAGGTGGTCAGGCTCAAATACCTGCCTCATTTGGACCCGGGTTCAGCCTGCGTGCTTCTCTCCCGATGGACAAGGAGAGGACAAGAGGGATTGTAGAAGATCTGCTTTGGGGCTGGGATTGGTGCTGTGCTTGGTACAAGTTGTGTGGGAGGAGGGTGCTAGCGCTTTGGACTCAGGAGGGAGAAGGGAGAGAGCAGCTGGGACATCCCATGTTCCTGAACACTGCTCCCACCTGTCCCCATGTGCAG
Seq C2 exon
GTTGGATGAGCACCCAAGCAGCAAGTGGAGCCCCAGGCTGAACTACTTTGAATACCGCAGGCTGCTGGGAAACCTGACAGCCCTCTGGATCCGAGCCACCTTCGGGGAGTACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004627:ENSGALT00000007372:7
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:
PF0005213=Laminin_B=FE(48.1=100)
A:
NA
C2:
PF0005213=Laminin_B=FE(29.0=100)
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:
AACCAACAGCTGAGCTATGGC
R:
GAAGGTGGCTCGGATCCAGAG
Band lengths:
279-595
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]