RnoINT0012647 @ rn6
Intron Retention
Gene
ENSRNOG00000020433 | Actn4
Description
actinin alpha 4 [Source:RGD Symbol;Acc:61816]
Coordinates
chr1:87089571-87090507:-
Coord C1 exon
chr1:87090277-87090507
Coord A exon
chr1:87089719-87090276
Coord C2 exon
chr1:87089571-87089718
Length
558 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
TGCTTTCTCCTACCCCACAGGAC
3' ss Score
10.96
Exon sequences
Seq C1 exon
CTTCTAGAGTGGATCCGGCGCACCATCCCCTGGCTGGAAGACCGTGTGCCTCAGAAGACCATCCAGGAGATGCAGCAGAAGCTGGAGGACTTCCGAGACTATAGGCGTGTGCACAAGCCCCCCAAGGTACAGGAGAAGTGTCAGCTGGAGATCAACTTCAACACCCTGCAGACCAAGCTGCGGCTGAGCAACCGGCCTGCCTTCATGCCCTCCGAGGGCAGGATGGTCTCG
Seq A exon
GTGAGTGCACTGCCACCTGGGGCCAGGGCATCACCTGCCAAACCGAAGTAGACCGACATTGTTATAGTTTGGGGCAGGGATGATGATGGGCGAGCTTCACGTTTCCTGACTATTTCTCCTGAGGTTTTACCCCCAGAATTCTCTGTACTACTGCCCCAGCCATACCACAGTTTGTGTGGACTGTTTGAATTTGCCAGGACTCCAGGTTAGCAAGTGTCTGAGACCCTCTATGGGGGAGGGATAGCGAGGCACCTTTCAAGGTCTACTCAGCAGCATCCATCCATTGCTTTGCCCACCTGCCCGCTCATACGAGATTCATTTACTTAAACCAAAACAATCAGTGCAAAGGTCAGCGTTCAGTCCCCAGCATCCATGTCAGGCAGCTCACATCCAAGCCACCCGTAACTCCTGCCTCTGTGAGGAGACACACACACACACACACACACACACACACACACACACAGCATCTGTCCATTGTGTCCGTGTAGACAGAGCTGCAGGGTTGGGTCAGGAAGGCCTCTCCATCCTGTAAGACTTCTGCTTTCTCCTACCCCACAG
Seq C2 exon
GACATCAACAATGGGTGGCAACATCTGGAGCAGGCTGAGAAGGGCTATGAAGAATGGCTCTTGAATGAAATCCGTAGGCTGGAACGACTTGATCACCTGGCAGAGAAATTCCGGCAGAAGGCTTCCATCCATGAGGCCTGGACCGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020433:ENSRNOT00000027773:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.065 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(68.5=100)
A:
NA
C2:
PF0043516=Spectrin=PD(18.9=42.0),PF0043516=Spectrin=PU(17.0=36.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCTAGAGTGGATCCGGCGC
R:
TTCTGCCGGAATTTCTCTGCC
Band lengths:
350-908
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]