DreINT0103409 @ danRer10
Intron Retention
Gene
ENSDARG00000032630 | neb
Description
nebulin [Source:ZFIN;Acc:ZDB-GENE-041111-216]
Coordinates
chr9:23000931-23001503:-
Coord C1 exon
chr9:23001411-23001503
Coord A exon
chr9:23001039-23001410
Coord C2 exon
chr9:23000931-23001038
Length
372 bp
Sequences
Splice sites
5' ss Seq
TCGGTATAC
5' ss Score
3.08
3' ss Seq
GCTGTGTTGTGTTTGTCCAGGTT
3' ss Score
8.04
Exon sequences
Seq C1 exon
GTGTTGTATAAGGATCTGTCGGCCAAGGGAACGCCTGTGGTGTTCACTCCAGAGATGGAGCGGGTCAAACGGAACCAATTGCACATTAGCTCG
Seq A exon
GTATACTCAGTTATAGGACATTTGTGTGTCTTTGTTTGAGCCGTATGTGCACATAACCGTGCTAATACCTTCATTTCATTTAGGAGGCTAATAATATTAACTGTATTCTTCTATATGCTGAATATAATGCTTTAACTGATCATCATTACTTTAAACCTTCATCACAGGATCCACCTACTCTTAATCCAGTCCTCTGAAGATGCGTCTAATTCATCTGTCTGAAATCATAATAACACCCAGGACTATGCTGATGTCATATTCATCTTCTTTGTGTGTGTCCTGATCTCTTGGTGTGTCTTCCACAGGGTCATAATCATAATCCAGGGTGAAATGGTTTCTAATTTTTGTATGTGCTGTGTTGTGTTTGTCCAG
Seq C2 exon
GTTTTGTACTCTGACAGCTTCCGTAAGCAGGTGCAAGGAAAGGCCGCCTTTGTGCTGGACACCCCCGAGATGAGACGCGTCAAAGAAACCCAGCGTATCATTTCTGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000032630:ENSDART00000143888:129
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.183 A=NA C2=0.106
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(18.2=12.9),PF0088013=Nebulin=PU(55.2=51.6)
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTGTATAAGGATCTGTCGGCCA
R:
TCCAGAAATGATACGCTGGGT
Band lengths:
199-571
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]