DreINT0103438 @ danRer10
Intron Retention
Gene
ENSDARG00000032630 | neb
Description
nebulin [Source:ZFIN;Acc:ZDB-GENE-041111-216]
Coordinates
chr9:23049943-23050242:-
Coord C1 exon
chr9:23050166-23050242
Coord A exon
chr9:23050051-23050165
Coord C2 exon
chr9:23049943-23050050
Length
115 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
GCCTTTCTGATCATTTTCAGAAA
3' ss Score
9.56
Exon sequences
Seq C1 exon
ACAAGCTCAAGATTCATGTGATGCCTGACAACCCTGAAATTATCCTGGCCAAGGCCAACGCATTAAACATGAGCCAG
Seq A exon
GTATGATTCCTATACTGACACTTGTATTTATTTCTAAAAAATATTAATTAATAATCCATGTTTCTAATAAAAGGCTAGTGCAATATATTTCATTTGCCTTTCTGATCATTTTCAG
Seq C2 exon
AAACTCTACAAAGCTGGTCTCGAGGAAATGAATAAAAAAGGCTATGATCTCAAACCAGATGCTATTTCAATTTTGGCTGCCAAAGCTGGCAGAAATATTGCTAGTAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000032630:ENSDART00000143888:35
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=PU(59.3=61.5)
A:
NA
C2:
PF0088013=Nebulin=PD(33.3=25.0),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:
CAAGCTCAAGATTCATGTGATGCC
R:
AGCAATATTTCTGCCAGCTTTGG
Band lengths:
178-293
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]