GgaINT0125411 @ galGal3
Intron Retention
Gene
ENSGALG00000003175 | C9orf96
Description
NA
Coordinates
chr17:7560502-7560712:+
Coord C1 exon
chr17:7560502-7560521
Coord A exon
chr17:7560522-7560616
Coord C2 exon
chr17:7560617-7560712
Length
95 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGTG
5' ss Score
-1.24
3' ss Seq
CGGCGCTCTGTGCCCCGCAGGTC
3' ss Score
10.34
Exon sequences
Seq C1 exon
TCGCCATGGAGAAATACGAG
Seq A exon
GTGGTGCTTCAGGGGTCCGGCGAGCAGCGGGCGGGGGATGGCGGGGTGCGTGCCGCTGTAGGCCCGGCTGAGTGTCGGCGCTCTGTGCCCCGCAG
Seq C2 exon
GTCCTGCAGCGGCTGCAGCCCGGGGCGTTGGGCACCGTGCTGGTAGCGGGGCTGAAAGCGGAAAGAAACGCGAAGGACAGATTTGTAATAAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003175:ENSGALT00000005036:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PU(0.4=20.0)
A:
NA
C2:
PF0006920=Pkinase=FE(11.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGCCATGGAGAAATACGAG
R:
TTATTACAAATCTGTCCTTCGCGT
Band lengths:
111-206
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]