DreINT0025714 @ danRer10
Intron Retention
Gene
ENSDARG00000071090 | actn2b
Description
actinin, alpha 2b [Source:ZFIN;Acc:ZDB-GENE-051127-39]
Coordinates
chr17:20112879-20113290:-
Coord C1 exon
chr17:20113198-20113290
Coord A exon
chr17:20113110-20113197
Coord C2 exon
chr17:20112879-20113109
Length
88 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
GTCTCTCTACTTTCCTGTAGCTG
3' ss Score
8.99
Exon sequences
Seq C1 exon
GCTGAAACTGCTGCGAACAGGATCTGTAAGGTGCTTGGAGTGAATCAGGAAAATGAGAAGTTGATGGAGGATTATGAAAGGCTGGCTAGTGAG
Seq A exon
GTGAGAAGACACATTGTAGTCTAATACATATCAGACGCACATGGATATTTGTTCCACTTCTCCTAAATGTCTCTCTACTTTCCTGTAG
Seq C2 exon
CTGTTGGAGTGGATCAGACGTACCATTCCTTGGCTGGAGAATCGTGCAGCTGAGAAGACCATGGTTGAGATGCAGAGGAAGCTGGAAGATTTTCGAGATTACCGCAGGATGCACAAACCACCCAAAGTGCAGGAGAAATGTCAGCTGGAAATCAGCTTCAACACGCTGCAGACCAAACTCCGCATCAGCAACCGGCCTGCGTTTATGCCCTCTGAGGGCAAAATGGTGTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000071090:ENSDART00000138911:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.013
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PU(9.9=35.5)
A:
NA
C2:
PF0043516=Spectrin=FE(68.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACTGCTGCGAACAGGATCTG
R:
TCCAGCTTCCTCTGCATCTCA
Band lengths:
174-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]