GgaINT0036781 @ galGal4
Intron Retention
Gene
ENSGALG00000004627 | LAMC2
Description
laminin, gamma 2 [Source:HGNC Symbol;Acc:HGNC:6493]
Coordinates
chr8:7509826-7510143:+
Coord C1 exon
chr8:7509826-7509921
Coord A exon
chr8:7509922-7510006
Coord C2 exon
chr8:7510007-7510143
Length
85 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
ATGTCATCTTTCTTTTCCAGGTG
3' ss Score
13.06
Exon sequences
Seq C1 exon
GAGCCAGCTCTGTGCCTGTGACCCAGCTGGCACAGGGGACTGCGTCTCAGGCCGTTGCATCTGCAAGGTTGGTGTCACTGGTGAGCGGTGCGACAG
Seq A exon
GTGGGTGTCTGGAGGTTTGTGCCCTATGGCAGGCTGAGCACGAGAGGAAAAAATGCACATAAATGATGTCATCTTTCTTTTCCAG
Seq C2 exon
GTGCAAACAAAACTTCTATAACTTGGATGCCAGGAACCCAGCTGGGTGCTCTCCGTGCTTCTGCTACGGACATTCATCCTCATGTGTCAGTGCTGAGAATTACAGCATCCACAAGATCACCTCCAGCTTCCAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004627:ENSGALT00000007372:4
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=PU(62.2=84.8)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(35.6=34.0)
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:
GCATCTGCAAGGTTGGTGTCA
R:
AGCTGGAGGTGATCTTGTGGA
Band lengths:
168-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]