DreINT0103435 @ danRer10
Intron Retention
Gene
ENSDARG00000032630 | neb
Description
nebulin [Source:ZFIN;Acc:ZDB-GENE-041111-216]
Coordinates
chr9:23051116-23051790:-
Coord C1 exon
chr9:23051686-23051790
Coord A exon
chr9:23051224-23051685
Coord C2 exon
chr9:23051116-23051223
Length
462 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
AAAGGCTTCTTTTTTTACAGTCA
3' ss Score
6.13
Exon sequences
Seq C1 exon
GCTGCTTATAAAGCCTCAGGAGAAAAATTTATGCACACCTATAATTTGCCACCTGACGCCCCACAGTTCCTGCAGGCCAAATATAATGCCCAGACTATGAGTGAG
Seq A exon
GTGAGTGCAATTACTCTAACTGAATGAATCTATATCTAGCAAATAAATTCCTAATGAAATAAAAGAGAAACACTTTTCAGTTTGGTTCTAGTGATGTTCACATTTGGCATCTTGAGATATCAGAGACTGTCTTTTTTATTTATGCAGTATTTTTTCACCAATATCTAAATTAATTTATGAACATTATAGTTCACTGCCAGTTCATGTTAATGGTAAGATTATATCTTTATAAAAAGCATTAAACAGGTTTGTTATTGCAGAAACACCTTTTCGAAATATACGGTCTAATTATAGTGATAATTTACCAATTTTATATTTTTATAGTTATTTTTTCATGTCAAGATTCATTTATTGAATTTTATTTAGTTAAATGCTTTTACATTTGATTTCTTTGCTATTTATTATTACAAATTAATTACTAAAATTATGTAGATATTAAGAGAAAGGCTTCTTTTTTTACAG
Seq C2 exon
TCACACTACAAGGCTCAGTGGATTGCGGACATTGCCAAGGGTTATGACATGAAAGCTGATGCTATTCCCATTCTTGCTGCTAAACAAGGAAGGCACATTGCCAGCAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000032630:ENSDART00000143888:31
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.029 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(37.9=31.4),PF0088013=Nebulin=PU(55.2=45.7)
A:
NA
C2:
PF0088013=Nebulin=PD(37.9=30.6),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:
TAAAGCCTCAGGAGAAAAATTTATGC
R:
GCAATGTGCCTTCCTTGTTTAGC
Band lengths:
198-660
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]