DreINT0025681 @ danRer10
Intron Retention
Gene
ENSDARG00000007219 | actn1
Description
actinin, alpha 1 [Source:ZFIN;Acc:ZDB-GENE-081113-4]
Coordinates
chr13:36207121-36207780:-
Coord C1 exon
chr13:36207598-36207780
Coord A exon
chr13:36207256-36207597
Coord C2 exon
chr13:36207121-36207255
Length
342 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGA
5' ss Score
5.13
3' ss Seq
TCACACTGCTTTCCTATCAGGTG
3' ss Score
9.63
Exon sequences
Seq C1 exon
GGTCTCAGCACAGCCCATGAGCAGTTTAAAGCCACACTGCCTGAGGCAGATAAGGAGCGACAGGCCATCCTGGGCATCCATAATGAAATTGCTAAAATTGTGCAGACATACCACGTCAACATGGCTGGCCAAAACCCCTACACCACCATCAACCCCCAGGAGATCAATGCCAAGTGGGATAAG
Seq A exon
GTTTGAGCACTGTTCTGCTTCACAAAACACAAAACACAAGAGAAAAGGGACTTTACAGACACATATTTTATACAGTTGAAGTCAGAATTATCAGCCTCCCTGTATATTTTCCCCCCAGGTACTGTTTACACATTTCTAACTGTTTACATATTTCTATTTTCTACTGTGAAAAATTCCTTGCTCTGTTAAACACCATCTGGGAAATATTTGAAAAAGAAAAAAATAATATTTCTACTGTATATAATAAAAATAATACTTCAACTGTATATAATTGTACTGTGTTGAAAAAAAAAAGATGCCAGGAAAGATGCTCATTTCTTCTTCACACTGCTTTCCTATCAG
Seq C2 exon
GTGAGGCAGTTGGTGCCCCAGAGAGATCAGGCCCTGATAGAGGAACACGCTCGTCAGCAGAATAATGAGAGGCTGCGCAGACAGTTTGCTAATCAGGCTAATGTTATCGGGCCCTGGATCCAGACCAAGATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000007219:ENSDART00000140243:15
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:
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:
GGTCTCAGCACAGCCCATGA
R:
CTCCATCTTGGTCTGGATCCAG
Band lengths:
318-660
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]