GgaINT0011798 @ galGal4
Intron Retention
Gene
ENSGALG00000005321 | LAMA5
Description
laminin, alpha 5 [Source:HGNC Symbol;Acc:HGNC:6485]
Coordinates
chr20:8191592-8192064:-
Coord C1 exon
chr20:8191964-8192064
Coord A exon
chr20:8191773-8191963
Coord C2 exon
chr20:8191592-8191772
Length
191 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
ACTGACCTGCTTTTCCCTAGGAG
3' ss Score
9.79
Exon sequences
Seq C1 exon
AGTGCAACTGTTCACCTTGTGGGACTGACTCATGCCATCCACAAACCGGCCAGTGCTTCTGCAAGGCTGGAGTGACGGGGCAGCACTGCGACCACTGCGAG
Seq A exon
GTGAGGCTGCCTGTGTACCGCGATGGTACCTTTGCTTGTCACGGGTGCTTCAGCTGCAGCTTTGGCAGTGATGCAGTACCCTATGGGGAGCTGCAGCAAACCTCATTTCCCTGCACGTATCCAGCGTGAGCTGTGCAGGACAAAGGTGGGTTTGCCCTGAACAGGGCCTGCACTGACCTGCTTTTCCCTAG
Seq C2 exon
GAGGGGTACTACGGCTTCGAGGGATGCTCTGGCTGCAGGAGGTGTGACTGTGATGTCGGTGCCATGGGGAGCAGCTGTCACGCACAGACAGGCCAATGCCACTGCCTGCCCGGCGTCAGCGGCTCGCGCTGCCAGCAGTGTGCCCCAGGCTACTGGGGCTTCAGCGAGAGGGGCTGCAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005321:ENSGALT00000008535:42
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(71.1=94.1)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(24.4=18.0),PF0005319=Laminin_EGF=PU(92.0=75.4)
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:
CTTGTGGGACTGACTCATGCC
R:
CTCTCGCTGAAGCCCCAGTAG
Band lengths:
256-447
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]