DreINT0135114 @ danRer10
Intron Retention
Gene
ENSDARG00000055934 | si:ch1073-416j23.1
Description
si:ch1073-416j23.1 [Source:ZFIN;Acc:ZDB-GENE-100922-35]
Coordinates
chr9:10819118-10819658:-
Coord C1 exon
chr9:10819563-10819658
Coord A exon
chr9:10819317-10819562
Coord C2 exon
chr9:10819118-10819316
Length
246 bp
Sequences
Splice sites
5' ss Seq
GAGGTGTTT
5' ss Score
1.54
3' ss Seq
GTGTGTGTGTGTGTGTGTAGAAA
3' ss Score
8.06
Exon sequences
Seq C1 exon
GAGACGTTAGAGAGCTTTGCCCCTTCCACACGTCCAAGGATTCCCTCTATCATTGTTCAGTGTGTTCACGAAATTGAGAGACGAGGACTTGAAGAG
Seq A exon
GTGTTTTTTACCAAATGATACACCAACACAAGGATAGTTTCTCAAACTGAAAGCATAATTACAGTGCTTTTGCAAGGCAGTGCTGTGTAATTGAGCTTAATTTGGAGTTAATAAGGAGTTAAGTCTTTTCTATCCTATTGCAGCACATTACAACATTCAGTGAAAGTGCATATGGGTGATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTAG
Seq C2 exon
AAAGGCATTTACAGAGTGCCAGGGGGAGAGCGGCAGGTGAAGGAACTGAGGGAGAAGTATCTTTACGGGAAAGGCCCACTGATGCTTCACAAAGTAGATGAGGTTCATGCTGTCTGCGGGCTCCTCAAAGACTTCCTGAGGAAACTCAGTGAGCCTCTCATCACATTTAAGCTTCACAGAACCTTCATGGAAGCTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055934:ENSDART00000134911:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.219 A=NA C2=0.016
Domain overlap (PFAM):
C1:
PF0062022=RhoGAP=PU(12.2=53.1)
A:
NA
C2:
PF0062022=RhoGAP=FE(33.8=100)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACGTTAGAGAGCTTTGCCCC
R:
AGCTTCCATGAAGGTTCTGTGA
Band lengths:
289-535
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]