DreINT0103405 @ danRer10
Intron Retention
Gene
ENSDARG00000032630 | neb
Description
nebulin [Source:ZFIN;Acc:ZDB-GENE-041111-216]
Coordinates
chr9:23010927-23011229:-
Coord C1 exon
chr9:23011116-23011229
Coord A exon
chr9:23011032-23011115
Coord C2 exon
chr9:23010927-23011031
Length
84 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAC
5' ss Score
7.29
3' ss Seq
ACTGTTTCATTTCTTTTTAGGCT
3' ss Score
10.6
Exon sequences
Seq C1 exon
AGAGAGTACAAGAAAGCTTTGGAGCAAGAGATCAAGGGAAAAGGCATGTTGGCTTTGGCTACTGACACTCCAGACTTCTTGAGGGCAAGGAACGCCACAGAAATCCTCAGTCAG
Seq A exon
GTACACAAAGATTCTCTTCAAACTGGCAGTGTTTCAAAGGCGATACATCAATAATACATTGATTACTGTTTCATTTCTTTTTAG
Seq C2 exon
GCTAAATACAAGCAGAATGCTGAACATGACAGAGCCACATACACCACAGTCATTGACACCCCTGACATCCTCCACGCTCAGCAGATCAGGAATATCGTGAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000032630:ENSDART00000143888:125
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.077 A=NA C2=0.418
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(41.4=30.8),PF0088013=Nebulin=PU(55.2=41.0)
A:
NA
C2:
PF0088013=Nebulin=PD(41.4=33.3),PF0088013=Nebulin=PU(55.2=44.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAGGGAAAAGGCATGTTGGC
R:
ATTCCTGATCTGCTGAGCGTG
Band lengths:
175-259
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]