DreINT0115612 @ danRer10
Intron Retention
Gene
ENSDARG00000062590 | pleca
Description
plectin a [Source:ZFIN;Acc:ZDB-GENE-030131-8984]
Coordinates
chr19:22864111-22864443:-
Coord C1 exon
chr19:22864350-22864443
Coord A exon
chr19:22864266-22864349
Coord C2 exon
chr19:22864111-22864265
Length
84 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGA
5' ss Score
8.94
3' ss Seq
TTGCTTCTTTTGTGTTGCAGGAC
3' ss Score
11.5
Exon sequences
Seq C1 exon
GTTGGAGCGTCTGCAGAGAATAGTCAGTAAAGTACAAATGGAGTCAGGCGTGTGTGAGGAACAGCTCAACCAGGTGGAAACACTGTTACAAACG
Seq A exon
GTGAGATTTGAAGCTTTTTTTGTTTTGTTTTTATGGAGTTAAAAGAAAGCCGACAGCATTGTGGTTGCTTCTTTTGTGTTGCAG
Seq C2 exon
GACATCCGTCTGCTGAGCGCAGGAAAGCCTATCCAGCACGCGTCTGACATTGAGACAGATCTGAACAAGGCTGAAAACATGATCCGTTACCTGTTTAATGATGTGCAATTACTGAAAGATGGGCGCCATCTACAGGCAGAACAGATGTACAGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062590:ENSDART00000090679:12
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=0.038
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGAGGAACAGCTCAACCAGG
R:
TGGCGCCCATCTTTCAGTAAT
Band lengths:
169-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]