DreINT0025683 @ danRer10
Intron Retention
Gene
ENSDARG00000007219 | actn1
Description
actinin, alpha 1 [Source:ZFIN;Acc:ZDB-GENE-081113-4]
Coordinates
chr13:36204735-36205148:-
Coord C1 exon
chr13:36204969-36205148
Coord A exon
chr13:36204882-36204968
Coord C2 exon
chr13:36204735-36204881
Length
87 bp
Sequences
Splice sites
5' ss Seq
GAGGTACAG
5' ss Score
6.62
3' ss Seq
CGTCTCTTTCCTTCCTCCAGCAC
3' ss Score
10.31
Exon sequences
Seq C1 exon
GAAATCGGCCGAATCTCTATTGAGATGCACGGGACTTTGGAGGATCAGCTGACCCACCTGCGTCAGTACGAAAAGAGCATTGTAAACTACAAACCAAAGATCGACCAGCTGGAGGGGGACCATCAGCTAATACAGGAAGCACTTATATTTGACAATAAACACACTAACTACACCATGGAG
Seq A exon
GTACAGTACACACACACACACACACAATCTCACTTTCAATCCTCATAATGCATTAGTGTGTTCCTGACGTCTCTTTCCTTCCTCCAG
Seq C2 exon
CACATCCGTGTGGGTTGGGAGCAGCTCCTCACCACCATCGCTCGCACCATTAATGAGATTGAAAACCAGATCCTGACACGTGACGCCAAAGGCATCAGCCAGGAGCAAATGAATGAGTTCAGAGCCTCGTTCAACCACTTCGACCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000007219:ENSDART00000140243:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.003 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PU(58.2=97.0),PF077816=Reovirus_Mu2=PU(5.6=27.3)
A:
NA
C2:
PF0043516=Spectrin=PD(38.2=42.9),PF077816=Reovirus_Mu2=FE(29.6=100),PF0152612=DDE_Tnp_Tn3=PU(20.0=34.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAAGATCGACCAGCTGGAGG
R:
GTCACGTGTCAGGATCTGGTT
Band lengths:
170-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]