DreINT0103402 @ danRer10
Intron Retention
Gene
ENSDARG00000032630 | neb
Description
nebulin [Source:ZFIN;Acc:ZDB-GENE-041111-216]
Coordinates
chr9:23015492-23016092:-
Coord C1 exon
chr9:23015988-23016092
Coord A exon
chr9:23015603-23015987
Coord C2 exon
chr9:23015492-23015602
Length
385 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
TCTATCTTTGCGGTGGATAGAAA
3' ss Score
2.75
Exon sequences
Seq C1 exon
GTGAAGTATAAGGAGAAATATGAGAAAGAAAGAGGCAAAGCCATGCTGGACTTTGAGACTCCAACATATGTGACTGCTAAAGAGGCTCAGCATCTGCAGAGTCAG
Seq A exon
GTAAATACATGTTACCACAGCTCAGTGCAAAGCAAATGCAAATTTATATTGCTCAGTTAGTCTTTGTAACCCAGTCAGAGACAGTCTGCTTTTATATGGACATAAATATTGTAATACTGGTAAGTAACTGGACTTCATCAAGTTCCAACCAGGACCCATGGAAATATGGTAGGCATGTAGTGTATTTGTCTCAGGTGCTTAAAGCCTGCTTTGATTGTTTTACTGATGGTTGAAAGCAGTTTATGTGAACATCAAGATACTCAGTACATTATGAAAGATGTGAAAATGTCACACTCTTCGAGTGGGGAACCAGTGTGATGGTTTACAAAACCTGCGGTCCTGAAGCTTCATCCATGTCTCACTCTTCTATCTTTGCGGTGGATAG
Seq C2 exon
AAAGAGTATAAGAAGGACTTTGAGATGACAATGAAAGGAAAGAACCTCTCTGGGTTGGAGGTCACCCCTGCCATGATGCATGTCAGACACGCCACCAAAATTGTTAGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000032630:ENSDART00000143888:122
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.269 A=NA C2=0.411
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(41.4=33.3),PF0088013=Nebulin=PU(55.2=44.4)
A:
NA
C2:
PF0088013=Nebulin=PD(41.4=31.6),PF0088013=Nebulin=PU(55.2=42.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGAAATATGAGAAAGAAAGAGGCA
R:
ACAATTTTGGTGGCGTGTCTG
Band lengths:
198-583
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]