GgaINT0109139 @ galGal3
Intron Retention
Gene
ENSGALG00000008309 | CCDC146
Description
NA
Coordinates
chr1:13704050-13704397:-
Coord C1 exon
chr1:13704309-13704397
Coord A exon
chr1:13704215-13704308
Coord C2 exon
chr1:13704050-13704214
Length
94 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGA
5' ss Score
5.96
3' ss Seq
TCTTTTACACTCCTCTTCAGACT
3' ss Score
7.38
Exon sequences
Seq C1 exon
ATACAACTTCAAAATATTATTAAAGAAATAAAAAGAAAGGATCTTGAAATAGAAGAGTATAAAAAGAGGAAAAGAAGAGTCCATAAACA
Seq A exon
GTAAGAAAACAATTACACATTAGATAAAGAAATTCTTATCCAGATAATGTGTGCATAAACTTATAAAAATTATTTCTTTTACACTCCTCTTCAG
Seq C2 exon
ACTCCAAGGAGTTGCTAATATGTGTGATGTGATCAAAAATGAAAGGAATAAATGTATGCATTTGGTGAATGTTGCTCAGCAGAAAACAGCTGAAATTGAGGACCGGATAAAAGTAAAAGCAAGTGAAATAGAAACTTTAAGGAATACCCTTATAACCCAAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008309:ENSGALT00000013526:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.036
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF085815=Tup_N=PU(70.3=92.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGGAAAAGAAGAGTCCATAAACA
R:
TCCTTAAAGTTTCTATTTCACTTGCT
Band lengths:
168-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]