RnoINT0099855 @ rn6
Intron Retention
Gene
ENSRNOG00000006783 | Neb
Description
nebulin [Source:RGD Symbol;Acc:1311134]
Coordinates
chr3:37677128-37678370:-
Coord C1 exon
chr3:37678278-37678370
Coord A exon
chr3:37677221-37678277
Coord C2 exon
chr3:37677128-37677220
Length
1057 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGG
5' ss Score
10.48
3' ss Seq
GTGTCCCCATTTCCATGTAGGTC
3' ss Score
9.15
Exon sequences
Seq C1 exon
GTTTTATATAAAGAGGATGTGTCCCCGGGAACAGCAATCGGAAAGACTCCGGAGATGCTCAGGGTGAAGCAAACTCAGGACCACATTAGCTCG
Seq A exon
GTAAGGACACGTCCGTCACTCCTGCCATTCTCGACCTGATTCCGATAAATCTGTGACTTCTGAGTCATACTCAAAACCTGTCACCAGAAACAGTGTCCAAGCTAAAAGCAAGTGTCTGCGTGTCGCTGTCATCACGTGCTACATGCTAGTGCAGGTTCTCACAAAGAGGAAGGTCCATGGGAGGAAACAGAGGCTTATGAGAAACTCTATTAGCCTCAGAAAATGAGCCTTTCCGCAGACGCGTGTGGGGCTACGTCTGTCCTAAGCAAATGGACTGTTGCTATGAAGAGGCTGGCGGACAGGAGGCCTCTTCCTACTTTTGCATTCTCTGATTCCTGTCGCCTCCCAAGCCTCCCGAAAATGTGAAATGGAAAGCCCAGAAAAATTATCCTTTCTGATAATATAAATAGCTCCCATCTCATCCTACCTGGGGCGCGAATCATCCCTTCATTCAGTAGAATCCAGAAGTGCACGCTACCTGACCTCAGTAGCTGTCTGCACCGCCAGATTTTACTACTTCAGTGTTTGTGAGGAGCAATGCTAGCCAGGCAGGTAAAACGGAGAGCTTCATGGTGCTCCCTCCGTGTGAAACAGCAAAGTATTGCACAAAAGAAGTAAAAATGCCAAATGCCAAGGTTTGTAACCTTGGTTAACAGAATAAATTTTATATCTGGGAACTTGAAGTGGGGGGACGGGACCCCATGCTTGTTTGCTGCCATACCTCAGAACAGCAGAACAGGAAGCTACCATGCATGGTAAGCACTCAATTAAGAAAAAGGCTGGTGTGCGGCAGCACATGCCTTCAGCCCACCACTCAGGAGGCAGAGACAGGTGGGTGTCCTGTGAGCCTGAGGTCAGCCTGGTCTACACAAGTGAGAGCTTGTCTCGAGACTACCCAAAACTGAAGGAGAGCTGTGTGTGACTCCCTGGTAGGATGTATACTAAACATGCACCATCTCCAACCCCCCTGAGCAATACAGGACATTTATCAACCGTACATATGTGGTGGGAAGAATTCAGCATGGAGTAACACCCTGGTGTCCCCATTTCCATGTAG
Seq C2 exon
GTCAAGTATAAAGAAGCAATTGGACAAGGAACTCCCATCCCTGACCTGCCCGAAGTGAAGCGCGTCAAGGAGACCCAGAAGCACATTAGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006783:ENSRNOT00000059461:101
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.581 A=NA C2=0.774
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(25.0=19.4),PF0088013=Nebulin=PU(61.5=51.6)
A:
NA
C2:
PF0088013=Nebulin=PD(30.8=25.8),PF0088013=Nebulin=PU(64.0=51.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATATAAAGAGGATGTGTCCCCGGG
R:
CGAGCTAATGTGCTTCTGGGT
Band lengths:
182-1239
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]