DreINT0025690 @ danRer10
Intron Retention
Gene
ENSDARG00000007219 | actn1
Description
actinin, alpha 1 [Source:ZFIN;Acc:ZDB-GENE-081113-4]
Coordinates
chr13:36225578-36225887:-
Coord C1 exon
chr13:36225800-36225887
Coord A exon
chr13:36225657-36225799
Coord C2 exon
chr13:36225578-36225656
Length
143 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TGTCTCTCTCTCTCTGTTAGCTG
3' ss Score
9.16
Exon sequences
Seq C1 exon
AGACCTCAGCGAAAGAAGGCCTGCTGTTGTGGTGCCAGAGGAAAACGGCTCCCTACAAAAATGTCAACATTCAGAATTTCCACATCAG
Seq A exon
GTGAGGGGATAGGAAATGAGCGCATGAGGGAAAAGCAGAGTGAATGATGGGAAAAGAGAAAGACTGACAGAGATACTGCAACTGAACGCTGAGCTACAGCATCATATATAACCTTTATCTGTCTGTCTCTCTCTCTCTGTTAG
Seq C2 exon
CTGGAAGGATGGATTGGGCTTCTGTGCGCTCATTCACAGACATCGGCCAGAGCTCATCGATTACAATAAACTGCGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000007219:ENSDART00000140243:5
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCTCAGCGAAAGAAGGCC
R:
GCGCAGTTTATTGTAATCGATGAGC
Band lengths:
163-306
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]