DreINT0088051 @ danRer10
Intron Retention
Gene
ENSDARG00000058543 | lama5
Description
laminin, alpha 5 [Source:ZFIN;Acc:ZDB-GENE-030131-9823]
Coordinates
chr23:9771846-9772253:-
Coord C1 exon
chr23:9772135-9772253
Coord A exon
chr23:9772017-9772134
Coord C2 exon
chr23:9771846-9772016
Length
118 bp
Sequences
Splice sites
5' ss Seq
GAGGTACGG
5' ss Score
9.4
3' ss Seq
CACATCTCACATTTGTTCAGATT
3' ss Score
6.24
Exon sequences
Seq C1 exon
CCTCAAAGAGAGACTGCATTGAGCGGTTTGGCCAGAGGACTATCGAGCGGATCTACCATGATGACGATGTCATCTGCACAACAGAGTACTCTCGAATTGTCCCATTGGAGAATGGAGAG
Seq A exon
GTACGGAAATGTAGAATTCATGGCCCAACACTGGTCGATCTCTCCTGCTTACGCTTTTGTAGATATACAGACTTACTTTTGGTGCTGAAATAGTATCTCACATCTCACATTTGTTCAG
Seq C2 exon
ATTGTGGTGTCTCTGGTAAATGGACGACCCGGAGCCATGAACTTCTCCTATTCTCCCGTTTTGAGGGAGTTCACCAAAGCCACCAACATCCGCTTGCGTTTTCTGCGCACCAACACACTGCTGGGTCACCTGATGGGCAAAACCTTGAGAGACCCCACAGTCACACGAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000058543:ENSDART00000045126:4
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:
PF0005512=Laminin_N=FE(15.7=100)
A:
NA
C2:
PF0005512=Laminin_N=FE(22.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGAGGACTATCGAGCGGAT
R:
TGACTGTGGGGTCTCTCAAGG
Band lengths:
251-369
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]