RnoINT0099858 @ rn6
Intron Retention
Gene
ENSRNOG00000006783 | Neb
Description
nebulin [Source:RGD Symbol;Acc:1311134]
Coordinates
chr3:37667638-37669426:-
Coord C1 exon
chr3:37669334-37669426
Coord A exon
chr3:37667731-37669333
Coord C2 exon
chr3:37667638-37667730
Length
1603 bp
Sequences
Splice sites
5' ss Seq
TCGGTACTC
5' ss Score
3.1
3' ss Seq
GGATCCACTGACTCATTTAGGTT
3' ss Score
4.58
Exon sequences
Seq C1 exon
GTGCTATATAAAGAAAACATGGGCAAGGGAACCCCTTTACCTGTCACTCCAGAGATGGAGAGAGTCAAACACAATCAAGAAAATATTAGCTCG
Seq A exon
GTACTCTGACAAGGGAAAAAAATGACTTCTTTCGTGATTTTAAAACTACCTCAATGACTTAAAATAATTCCTATTAATCCTATTTTAAAAGGCGTCTTACATCTTGTCCATTTCTTGGCTACATTTATCCTTTGTTCCTACCTAGCCTTAACTTCATAACAGAATTGCCTTATTGCCTTTAAAATTCTAATATCGAGGTAACAGATTTTCCTACAAAATATTCTTCTGCTTATCTCTCCTGTACCCAACTTCCTCTCTGCTATACCCAAGGTCTCTTTGCATGCTTGAGAAATCGGGGCATTAGGGACCTTGATGGGTGAAATCAAAGATATAATGTGGGGGTCTTTCTTGGATGTTGAAGTCTTTGATGACTCTGACTCGCCCCCACTAGATTTGACTTTTGTAGTACATATGATCAGTCTGCGGGGCTTTGCACGGGCTAAGGCATGTTCTTACATGGAACCAGATCCCCAGTCTTGCTATGACAAACGTGGGCAAAGAGATCTTGGGAAAATAGCTCCTGATCCTAAGCCGTAGATAATGATGTCAACTTGATATGGTGTTTTCCCAACTGCATAAGTTACTGAAAAAGGAAAGTGTCAAGACTTTTTGTCTTAGTGGTCTTAATTTTGGTTTTGTCGTCTCTACGATGAAAGTCAGTGCTAACTGTAACAGTGTATTTCTTTCAAGCGTGTGCTCTCTGGTATTAATCTGTCAGTGGCTGGGGATAGAGTCTCTGGGGACTTTAGCTCTCAGTAACTGCTCAGCATTTACACTGCCTCAAAGTTTCTCCTGTTCCTCACAGTCATCTGAATGCTGGGTAAAGCAGGCGTCTGGGTCTGGCCCTTGTTCCCTATTTTGTCAGTAGCTGCAGTGTAGAGCAGAGAACGGGCATTTCTAGTACATTCTCAGCTGATACTGACCAGCTATTCAAGGACTTAGAGACCTGCTGGGGGAGAATCCCTCCTTAGTGACAGTTCCCAAATCTCCCAGATCACCTAGAAGGACACTGAGGAAGACGTTTGAGGTTGAGGGTTTATCATGACCCAGATCTATTGCTTTTACATGCTGGTAATGTAATTGCTGAAAACATCTCTCATGGCTGATAAGTGTGAAATATTTGGTGACTAAAATAAGCAAAACATAAAGATAGAGGAGTAAGAGAAACACTTGCCTGGGGGTCTACAATTTTACTCCCTATGAGTGCCTGTGTTGCAAAAGTACCAGTTAGAGTGTTGTTGTATTGGGGCAACTTCAAAACACAAACAGCCCCACATGGTAACTCCCAGTTAGGTGATGTGTCATGGGACTGATAGTCACATACTAGTGGTAAAATGATGGTAGGGCTTCCTCCTTTCTGTAACATCACAGCCCTCACAGGGCAAGGTTGTACTATAGGAATGTGTGCCTTACTCTAACTGCAGTCAGCTTCTCCTTTGAAAACATAGATTGCTGTCTAACCTTAGTGCCTAAATGACTTGGTACCCAGAGCCTCCTCAAAAGTTAATGTACTATTCCATTTCTTCTTTTGGTAATTGTAACTCTTTTTTTGTTGTTGTTGTTGTGTCTCCTTTTGGATTTTCGGATCCACTGACTCATTTAG
Seq C2 exon
GTTTTGTACAAAGAAAATGTGGGTAAAGCCACCCCAACCCCTGTCACTCCAGAGATGCAGAGAGTCAAACGCAATCAAGAAAACATTAGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006783:ENSRNOT00000059461:105
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(35.7=32.3),PF0088013=Nebulin=PU(57.1=51.6)
A:
NA
C2:
PF0088013=Nebulin=PD(35.7=32.3),PF0088013=Nebulin=PU(55.2=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:
GTGCTATATAAAGAAAACATGGGCA
R:
CGAGCTAATGTTTTCTTGATTGCGT
Band lengths:
186-1789
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]