DreINT0025713 @ danRer10
Intron Retention
Gene
ENSDARG00000071090 | actn2b
Description
actinin, alpha 2b [Source:ZFIN;Acc:ZDB-GENE-051127-39]
Coordinates
chr17:20113198-20113665:-
Coord C1 exon
chr17:20113580-20113665
Coord A exon
chr17:20113291-20113579
Coord C2 exon
chr17:20113198-20113290
Length
289 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTG
5' ss Score
8.35
3' ss Seq
ACTGTATTTTTCCTGCTCAGGCT
3' ss Score
8.23
Exon sequences
Seq C1 exon
ACATCCTGAGCACCCCTAAACCTGATGAGAGGGCTATTATGACATACGTGTCCTGCTTTTACCATGCATTTGCTGGAGCTGAGCAG
Seq A exon
GTATTGAGTTTTGCATGAGTTAGACTGAGTGATTCTTTTGTCAAGTTTATATTTGGGTTTCACATATGTCATATATGCAACATTTCAAATATGTGCTTTCAAATACAGTATATGGCCATTATATAGTGATTTTTGCAATGTTTAGAAACATGTTTTGCATATAAAATGTATGTGAAATCCAAATATGAACTAGTGTGGCATAAATGTAATTTGCATATATTGCCATGTATCATGTTTACATGTGGGCGCCCATCTCTTCTTCTGTTCTTACTGTATTTTTCCTGCTCAG
Seq C2 exon
GCTGAAACTGCTGCGAACAGGATCTGTAAGGTGCTTGGAGTGAATCAGGAAAATGAGAAGTTGATGGAGGATTATGAAAGGCTGGCTAGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000071090:ENSDART00000138911:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.022 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0030726=CH=PD(23.1=82.8)
A:
NA
C2:
PF0043516=Spectrin=PU(9.9=35.5)
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:
CATCCTGAGCACCCCTAAACC
R:
AGCCAGCCTTTCATAATCCTCC
Band lengths:
172-461
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]