RnoINT0099856 @ rn6
Intron Retention
Gene
ENSRNOG00000006783 | Neb
Description
nebulin [Source:RGD Symbol;Acc:1311134]
Coordinates
chr3:37675166-37677220:-
Coord C1 exon
chr3:37677128-37677220
Coord A exon
chr3:37675259-37677127
Coord C2 exon
chr3:37675166-37675258
Length
1869 bp
Sequences
Splice sites
5' ss Seq
TCGGTACTG
5' ss Score
4.52
3' ss Seq
GTCTTCTAATTATTCTGCAGGTT
3' ss Score
9.74
Exon sequences
Seq C1 exon
GTCAAGTATAAAGAAGCAATTGGACAAGGAACTCCCATCCCTGACCTGCCCGAAGTGAAGCGCGTCAAGGAGACCCAGAAGCACATTAGCTCG
Seq A exon
GTACTGCCCCCTTCTTTGCTCTGCGTTCTTTGCTCTGCGTTCGTAGAACTAGCCACCTCTCAGCCAGTACCCTAGTTTCACCCATCCCTTCCTTCTGTCGAAGGCCTCCCTCCGGTGCCTGGGGATGCTGTGACTCTCCCTTGTCCCCCTCGGGTTGCAGAAGTCGCCGGGAGACTTCAGTCATAGCCGTAGCTCACTCGTATCACTCCTTGTACTCTAACTTCTCGGTGGCCAACTTCCTGTTGAACTCTGTCCACTAACCTGAAAAAAAAAAAAAAGCAAAACGAGCCCAGGGGTTCTGTGTTGCTTTGGGTTGCAACTCCTTGCCTTTCTGTAATTTTGTGTGATTCAGGCGCTCCAACTGTCTCTGCCCCCATGTGCGTTCATGGAGTGTACCACCATGCCAGGCTTAGGCTGAAACTTAAGGCAGCAAGGAGATAAGAGATTTAGAAAGTGGGCATTAAACTGAGAATAGGTCCCCCGTTGAAGGAATCAGAGAAAGAACTGGAAGAGCTTGAAGGGGCTCAAGACCCCAAAAGTACAACAATGCCAAGCAACCAGAGCTTCCAGGGACTAAGCCACTACCTAAAGACTATACATGGACTGACCCTGGACTCTGACCTCATAGGTAGCAATGAATATCCTAGTAAGAGCACCAGTGGAAGGGGAAGCCCTGGGTCCTGCCAAGACTGAACCCCCAGTGAACTAGACTATGGGGGGAGGGTGGTAATGGGGGAAGGATGGGGAGGGGAACACCCATATAGCAAGGGGAGGGGGAGGGGCTAGGGGGATGTTGGCCCGGAAACCAGGAAAGGGAATAACAATTGAAATGTAAATAAGAAATACCCAAGTTAATAAAGATGGAGGGAAAAAAAACCCTCTCCCAAAAATTAAAAAAAAAGAAAAGAAAAAGAAAAAGAAAGTGGGCATTCCTTACTCTTTAATTTAAAGTCAGTTGATGATACCGCTAAAAGAAAACATAGATTTAGGGCAGGGACGGAGGACACAGTTCAGTGGTGGAACATTTGCCTACCGTGCACTAGGCCACCGAGATCAGTCCTAACAGTGCAAATAAAACACAAAAATAGACACAGGGAAAATAGACCGACCAACAAACACTGGCTTCCTCAATCCTGTAATCATGGCTAAACATTTCAGAGGAACAAAATACAGAGTATGCCCACTCATATCACTGTCCCACTAGGGATGGCCTAAAGCTTCCTTAGAGCTGGGAGTGATACGTGCCTGTGGTCCCAGCACTCAGGAAGCTGAGGCAGGAGGAATCCTGGGAGGTTAACACAAGTCAGAGCTAAGTAGCCTAAGAGCTTGTCCCAAAAATAGTGATAGAAATAGAAGGTAAAATGCTAAGGATTATATCAGGAAATACACAAAATTCTCAATGACTCAGAAGAAGTGAGGATTAGAACATCACGTGGTTAGAAAGTTGTAAAATAGACAGCATGTGCTTTGAGTACAACTATGTAGGCACACTTAGGCTCCAGACGTTAAGCCTGGGTGCCATGAAACGGTTACCTTGGGTTGCTTTGGTTTCATTTTTGTTTTGGAGGGGGTGGTTACTGGAAACTGAACCCAAGGCTTTGCAGGTGCTAGTCAAAAGGTTTTCTCACTGTTTATGAAATTTATTATCATAATTTAATGCATTTTAAGTATTGGCTGTAGGAAATGCAAATTTTAGTTTCCAGTTTTCTAGATGGCTACAAATATTTATGGACTTCTTTTCCTCCGTCCCTGAGTTCATTTTACAAAGGCAGCTTGCTTTCACGGATGCTCACCACAGCTGCCTCCCAGAGCTATAATCTGAAGCATTTGTGGTGACTCCGCTTTCTGGGTCTTCTAATTATTCTGCAG
Seq C2 exon
GTTATGTACAAAGAAAACCTGGGAACAGGCATCCCAACCACTGTCACCCCAGAGATTGAGAGAGTCAAACGCAATCAAGAGAACTTTAGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006783:ENSRNOT00000059461:102
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.774 A=NA C2=0.774
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(30.8=25.8),PF0088013=Nebulin=PU(64.0=51.6)
A:
NA
C2:
PF0088013=Nebulin=PD(28.0=22.6),PF0088013=Nebulin=PU(57.1=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:
AGTATAAAGAAGCAATTGGACAAGGA
R:
CGAGCTAAAGTTCTCTTGATTGCG
Band lengths:
182-2051
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]