GgaINT0011768 @ galGal4
Intron Retention
Gene
ENSGALG00000005321 | LAMA5
Description
laminin, alpha 5 [Source:HGNC Symbol;Acc:HGNC:6485]
Coordinates
chr20:8210717-8211082:-
Coord C1 exon
chr20:8210945-8211082
Coord A exon
chr20:8210770-8210944
Coord C2 exon
chr20:8210717-8210769
Length
175 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGTA
5' ss Score
5.69
3' ss Seq
CTTGTGCCTCTCTTCTCTAGTGG
3' ss Score
9.23
Exon sequences
Seq C1 exon
CCTGCCAGTGCTCCAGGGAGGGCTCTCTGCACAGTACGTGTAACCAGGAGACGGGGCAGTGCAGCTGCCGGCCCAAAGTGACAGGGCTGCGCTGTGACAGCTGCGTGCCGGGTGCCTATGGATTTCCACACTGTGAAG
Seq A exon
GTAGTAGCTCCCTTCTCCTCCTGGGGCAGGGACCCTGGGGTCCTGGACATGGTGTGGTGCTGGTAAATGGGATGTCGTTCCCTAACAGCTATGTCAGGGAAGAAATAACTGCTTTGAGGAGCAGTCAGGATGTGAGTTGTCTCTATAAATCCCTCCTTGTGCCTCTCTTCTCTAG
Seq C2 exon
TGGGCTCCTGTAACCCAGCTGGGTTAGTGACTGCAGATCCCTCGCTGGCCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005321:ENSGALT00000008535:12
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=PD(0.1=0.0),PF0005319=Laminin_EGF=PU(91.8=95.7)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(6.1=16.7)
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:
CCTGCCAGTGCTCCAGGG
R:
CCAGCGAGGGATCTGCAGTC
Band lengths:
186-361
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]