DreINT0103461 @ danRer10
Intron Retention
Gene
ENSDARG00000032630 | neb
Description
nebulin [Source:ZFIN;Acc:ZDB-GENE-041111-216]
Coordinates
chr9:23039938-23040288:-
Coord C1 exon
chr9:23040184-23040288
Coord A exon
chr9:23040046-23040183
Coord C2 exon
chr9:23039938-23040045
Length
138 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
AAATAAAATTCTGCTTACAGAAA
3' ss Score
5.63
Exon sequences
Seq C1 exon
CGTCAGTACCATTCAGCATGGGAGGCTGACAAGATCAAGATTCATATCCCTCCTGATACGCCAGAAATTGTGCTCTCAAGTGCTAATGCAATCACCAATAGTAGG
Seq A exon
GTAAGTATTACATTGAAATAATGTCTCTTTCTACACTTTCTTCATTTGGTTTAGTCTCACAATCATGCATTCTGTTTGATTTCCAAATTAGTCCTTTAACTTCAGAAAACAAAATACCAAATAAAATTCTGCTTACAG
Seq C2 exon
AAACTATACAGACAAGGAGTTGAAGAAATCTTCAGGAAAGGCTATGACATAAAAACTGATGCTGTCGCCATCAGAGCTGCTAAAGCATCCAGAGACATTATTAGTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000032630:ENSDART00000143888:63
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:
PF0088013=Nebulin=PD(37.9=31.4)
A:
NA
C2:
PF0088013=Nebulin=PU(55.2=44.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCATGGGAGGCTGACAAGATC
R:
TCACTAATAATGTCTCTGGATGCT
Band lengths:
197-335
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]