DreINT0103407 @ danRer10
Intron Retention
Gene
ENSDARG00000032630 | neb
Description
nebulin [Source:ZFIN;Acc:ZDB-GENE-041111-216]
Coordinates
chr9:23007254-23007800:-
Coord C1 exon
chr9:23007696-23007800
Coord A exon
chr9:23007371-23007695
Coord C2 exon
chr9:23007254-23007370
Length
325 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
TTGTGCTCTTTTCTTTTTAGCTT
3' ss Score
10.9
Exon sequences
Seq C1 exon
AAAAAATACAAGGAGGAGGCTGAGAAGACCATGTCTCACTATGTGCCTGTCCTGGACACCCCAGAAATGCAAAGAGTGCGTGAGAACCAGAAGAACTTCAGCACT
Seq A exon
GTAAGTGTTTCTCCACAGCTTTTGAGGAAGGCCATAATATGTGTTCCATCCATATTATGTTCCTGTTTTATTCATCTTAGCCTAAATGTGGTATCCGTAGCCTTTGTTGTCCTTGTCTTTCATGTGTTCATGTTATATAGGAAATAAAAAAGACAGATATAAAAGAGTTGGCGGATTCCACAGTTCTTATGTTTTTGTTATATGCTAGTTAGATGTATGTTTGAAAGTCTCTTGAATATATTTTTTTACATTTTTGGTTGCACTGTTTTCTCTTGTTGAATTTTTGTGTCATTTTTTGACTGCTATTGTGCTCTTTTCTTTTTAG
Seq C2 exon
CTTCAGTACCAGATTGACCTTAAAAAGAGTAAGGGCAAAGTTTCAGCAGTACAGAACACCCCTGAAATGCTTCGTGTTAAAGAAAATACAAAGAATTTCAGCTCGGTACCTACTGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000032630:ENSDART00000143888:127
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.630 A=NA C2=0.383
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(41.4=33.3),PF0088013=Nebulin=PU(64.0=44.4)
A:
NA
C2:
PF0088013=Nebulin=PD(37.9=28.2)
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:
ACAAGGAGGAGGCTGAGAAGA
R:
GGCAGTAGGTACCGAGCTGAA
Band lengths:
215-540
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]