DreINT0103454 @ danRer10
Intron Retention
Gene
ENSDARG00000032630 | neb
Description
nebulin [Source:ZFIN;Acc:ZDB-GENE-041111-216]
Coordinates
chr9:23042265-23042655:-
Coord C1 exon
chr9:23042551-23042655
Coord A exon
chr9:23042373-23042550
Coord C2 exon
chr9:23042265-23042372
Length
178 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
CTTTGAATTTTGATTTCCAGAAA
3' ss Score
7.96
Exon sequences
Seq C1 exon
AAAAGCTATGTGGAAGCTTGGGAAAAGGATAAGACAAAGATCCATGTCATGCCAGATACAATGGAGATATTGCTTGCTAAACAGAACAAAACTAACTACAGTGTG
Seq A exon
GTGAGTCATTTGATTTAAGATTTACATTGAAAATGACAAGTTTATTTTATATCTATTTGTAAGCATTTGTATTTTTGTATCTTTTTTAGATTTATGTATATTTGTTTTTGACTTTCTTAAATAATATTGTCAACTTTTAAGCAGTACTTCTATAACTTCTTTGAATTTTGATTTCCAG
Seq C2 exon
AAACAATATAAGCTTGCCAATGAAGAGTCCAAAAAGAAAGGCTATGATATGCGTGGGGATGCTATTTCTATAAAAGCAGCTAAAGCCTCTAGAGATATCGTCAGTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000032630:ENSDART00000143888:55
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=0.056
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(39.3=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:
AAGCTATGTGGAAGCTTGGGA
R:
TCACTGACGATATCTCTAGAGGCT
Band lengths:
210-388
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]