GgaINT0011769 @ galGal4
Intron Retention
Gene
ENSGALG00000005321 | LAMA5
Description
laminin, alpha 5 [Source:HGNC Symbol;Acc:HGNC:6485]
Coordinates
chr20:8210401-8210769:-
Coord C1 exon
chr20:8210717-8210769
Coord A exon
chr20:8210501-8210716
Coord C2 exon
chr20:8210401-8210500
Length
216 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
3' ss Seq
TTTCTCCTCCATTTCTCCAGGGC
3' ss Score
10.49
Exon sequences
Seq C1 exon
TGGGCTCCTGTAACCCAGCTGGGTTAGTGACTGCAGATCCCTCGCTGGCCCCA
Seq A exon
GTGAGTATCATCAGATGAACCTGCCCAACCTCTGCAGGCCGTTTTATTTATTTATTTATTTATTTATTTGCACGATCCCTCTTTTTCTTGCTTGGGCCAAATCATTCCTAAAGCACAGTTCTAGAAGCAGCCGTTGCTCACTCTCGGGTAGCAGACACTATGTTCAGCCACTGTTATGCAAATTCTCACCTGCTCTTTTCTCCTCCATTTCTCCAG
Seq C2 exon
GGCTCCTGTGCATGTCGGGCATACGTTGAAGGCCCAGCTTGTGACAGATGCAAGCCCTTGTACTGGAACCTGACTCCAGATAACCCTTATGGCTGCACGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005321:ENSGALT00000008535:13
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(6.1=16.7)
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:
GGGCTCCTGTAACCCAGCT
R:
TCGTGCAGCCATAAGGGTTAT
Band lengths:
152-368
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]