DreINT0025710 @ danRer10
Intron Retention
Gene
ENSDARG00000071090 | actn2b
Description
actinin, alpha 2b [Source:ZFIN;Acc:ZDB-GENE-051127-39]
Coordinates
chr17:20118138-20118427:-
Coord C1 exon
chr17:20118340-20118427
Coord A exon
chr17:20118217-20118339
Coord C2 exon
chr17:20118138-20118216
Length
123 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
ATTGTCTCTCTCTGATAAAGCTG
3' ss Score
6.28
Exon sequences
Seq C1 exon
AAACTTCGGCCAAAGAAGGACTTCTGCTGTGGTGTCAGAGAAAGACTGCCCCGTACCGAAATGTCAATGTTCAAAACTTCCATGTCAG
Seq A exon
GTGAGGCTCTGTTTGGGGATGAAATGTTTTGTGCTTTTAATAAATTATCGGCTATTTTATAGGCATATATTTTCAGTTTTATATTGCTTTCAACATGACCCTGATTGTCTCTCTCTGATAAAG
Seq C2 exon
CTGGAAGGATGGATTGGCGCTGTGCGCTCTCATCCACAGGCACAGGCCTGACCTCATTGACTACGCCAAGCTCAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000071090:ENSDART00000138911:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0030726=CH=PU(24.0=83.3)
A:
NA
C2:
PF0030726=CH=FE(25.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTTCGGCCAAAGAAGGACTT
R:
TTGTTGAGCTTGGCGTAGTCA
Band lengths:
164-287
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]