RnoINT0012592 @ rn6
Intron Retention
Gene
ENSRNOG00000056756 | Actn1
Description
actinin, alpha 1 [Source:RGD Symbol;Acc:70907]
Coordinates
chr6:103383042-103383571:-
Coord C1 exon
chr6:103383389-103383571
Coord A exon
chr6:103383177-103383388
Coord C2 exon
chr6:103383042-103383176
Length
212 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
CCCCGTTGTTCCCACCCCAGGTA
3' ss Score
8.96
Exon sequences
Seq C1 exon
GGACTGACCACAGCCCATGAGCAGTTCAAGGCTACCCTCCCGGATGCAGACAAGGAGCGCCTGGCCATCCTGGGCATCCACAATGAAGTGTCCAAGATTGTCCAGACCTATCATGTCAACATGGCAGGCACCAACCCCTATACAACCATCACACCTCAGGAGATCAATGGCAAATGGGACCAT
Seq A exon
GTGAGTTGAAGGGCGGATGGGCCTAGGCTGAGCCATCGTACATTTCTTAAGGGTGGGATTTTTATCTTTATCAGTGAGTGAATTTCTAGTCCAAGTTGACATCTTTACTCTTGCTGTGTTCTGACTTGCCCCCTTTCCTCAGTGGGGCCCCCACTTTCTCACCTGAGAGGTGTCTGGCCCACCCACAGAGTCCCCCGTTGTTCCCACCCCAG
Seq C2 exon
GTACGGCAGCTGGTGCCCCGGAGGGACCAGGCTCTAACAGAGGAGCACTCGAGGCAGCAGCACAACGAGAGGTTACGCAAGCAGTTTGGGGCACAAGCCAATGTCATCGGACCCTGGATCCAGACCAAGATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000056756:ENSRNOT00000079824:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.246 A=NA C2=0.511
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(53.6=100)
A:
NA
C2:
PF0043516=Spectrin=PD(11.6=28.9),PF0043516=Spectrin=PU(20.2=46.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGCAGTTCAAGGCTACCCT
R:
TCTTGGTCTGGATCCAGGGTC
Band lengths:
296-508
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]