GgaINT0011818 @ galGal4
Intron Retention
Gene
ENSGALG00000005321 | LAMA5
Description
laminin, alpha 5 [Source:HGNC Symbol;Acc:HGNC:6485]
Coordinates
chr20:8184045-8184525:-
Coord C1 exon
chr20:8184400-8184525
Coord A exon
chr20:8184197-8184399
Coord C2 exon
chr20:8184045-8184196
Length
203 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGG
5' ss Score
9.63
3' ss Seq
CCCACTTTTCTTCTCTGCAGATC
3' ss Score
12.59
Exon sequences
Seq C1 exon
GGACAGTTCTTGTGCCTGGCCATCCGGAATGGGAAGCTGGTGCTTTACTATGACTTCAACACGGGCCTGGAGATGGCAAAGCCCAGCAGCAATGCTTCCTCCATCAGCAGCGCCACGAACAAAGCG
Seq A exon
GTAAGGGGGAAGTGGGTGCCCACCTGGGGGCTGGCTCTTCATCCAGAGTGCCTGTTGGGCATCTGAAGCCTTGTTTTGTGGCAAGGTTTGAAGCCTGCAGGCTCTGGGCCTCCCTTCTGAGTGTTCTTTGCCTGGAGACATGAATTGGACACTTCATGCTCTGCTCTCTAATGGATCCAGTTGCCCACTTTTCTTCTCTGCAG
Seq C2 exon
ATCCAGATCTTCCTTCTCAAAATGAATAACAAGAAGCGCATCCTGGTGCGTCTGGAGCGCCTCACCATCTTCGTGGTGGAGCAGGAGAACTCCTTGGAGAATGCTGTGTCCTACTACCTGGGCGGTGTGCCCCCAGCAGTGCTGCCCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005321:ENSGALT00000008535:62
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:
PF0221019=Laminin_G_2=FE(31.1=100)
A:
NA
C2:
PF0221019=Laminin_G_2=FE(37.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTTCTTGTGCCTGGCCATC
R:
CCCAGGTAGTAGGACACAGCA
Band lengths:
245-448
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]