DreINT0025678 @ danRer10
Intron Retention
Gene
ENSDARG00000007219 | actn1
Description
actinin, alpha 1 [Source:ZFIN;Acc:ZDB-GENE-081113-4]
Coordinates
chr13:36209362-36209790:-
Coord C1 exon
chr13:36209640-36209790
Coord A exon
chr13:36209471-36209639
Coord C2 exon
chr13:36209362-36209470
Length
169 bp
Sequences
Splice sites
5' ss Seq
CAAGTCAGT
5' ss Score
2.74
3' ss Seq
CTCTCTCTCTCTCTCTGCAGTGA
3' ss Score
12.84
Exon sequences
Seq C1 exon
GTAAAGAGGAGATGTTGCAGCACAAAGACTTTGAGACGGCGTCACTGTCCGAGATCAAGGCTCTGCTGAAGAAACACGAGGCCTTTGAGAGCGACCTCGCAGCTCATCAGGACAGAGTGGAGCAGATCGCTGCCATCGCTCAGGAGCTCAA
Seq A exon
GTCAGTCAAACACACGGAAAACTGATCCAGACACTGATTCTTGCTGTAAACGATTTACTCTTTGACTGAACACACAGAACATTTGATCTGCAGCTTACTGAACATCATCTGTGATCTTTTGCTGAAGTAGTTTAATACTCTCTCTCTCTCTCTCTCTCTCTCTCTGCAG
Seq C2 exon
TGAGCTGGAGTATTACGACTCTCCCAGTGTAAATGCTCGCTGTCAGCGCATCTGTGATCAGTGGGATTCGCTGGGAGTGTTAACTCAGAAACGCAGTGAGGCCTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000007219:ENSDART00000140243:12
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(47.2=100)
A:
NA
C2:
PF0043516=Spectrin=FE(34.0=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:
AGAGGAGATGTTGCAGCACAA
R:
GCCTCACTGCGTTTCTGAGTT
Band lengths:
249-418
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]