GgaINT0011782 @ galGal4
Intron Retention
Gene
ENSGALG00000005321 | LAMA5
Description
laminin, alpha 5 [Source:HGNC Symbol;Acc:HGNC:6485]
Coordinates
chr20:8199109-8199767:-
Coord C1 exon
chr20:8199566-8199767
Coord A exon
chr20:8199236-8199565
Coord C2 exon
chr20:8199109-8199235
Length
330 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCA
5' ss Score
6.37
3' ss Seq
GTTCTTGTGTTTGGGGCCAGGCT
3' ss Score
4.91
Exon sequences
Seq C1 exon
CAGCTCCTGCATTCCCTCAAGGTTCCTAAAGCATTCCCAGTCGGTCGTTTTGGAGGGGGGCCAGGCTCTGCCTCTTGCCGCTGAAGTCCCTCTGGCTCAGGCTGTCCATGTGGCTCCAGCTGGGGTCCCACTGGAGCCTGCACCTCGGCCTCCCACTGCAATGGACTCCACCACAGAGCTCATCCTCCTACAGCCACCACAG
Seq A exon
GTAGCAGCATCAGCATGGGGTGGGCTGGATTTTTCCTTCTTTCTTCTGTAGCTTTAACAATTCAGCAATTAGCAGTTTTGGAATTTAACCAAGACTTTAACCTTGTCCCTGAAGCTGTAATTCCCACGGGCTCCTCTGTCTTACCTCCATTCTACCCTGCTTGGTTCTCTGGGCTCCCAGGAGCAGCTTTGCAGGTGGTACCATTAAGGGGGAAGAGTGGAGAGCTGGGAGGTGGATTCACTGAAAGTCTGACTGATATGGGACGGTTGGGTAATTGGGCCAGAAGTGACAGATGTGTTTTTTTGACTCTGTTCTTGTGTTTGGGGCCAG
Seq C2 exon
GCTGCTGTTGTGTTTAACAGCCGGATTCAGAACCTGGGGCGCTATGCTTTTGTTCTGCACTACTACCAACCCAACCATCCCACCTTCCCCGTGGAAGTGTTGATCAACGGTGGGCGCATCTGGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005321:ENSGALT00000008535:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.147 A=NA C2=0.000
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:
CAGCTCCTGCATTCCCTCAAG
R:
CTTGCCAGATGCGCCCAC
Band lengths:
329-659
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]