GgaINT0125009 @ galGal3
Intron Retention
Gene
ENSGALG00000009060 | C9orf140
Description
NA
Coordinates
chr17:759680-759997:+
Coord C1 exon
chr17:759680-759757
Coord A exon
chr17:759758-759948
Coord C2 exon
chr17:759949-759997
Length
191 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTAT
5' ss Score
4.29
3' ss Seq
CAGCAAGACCTGTCTCTCAGCTG
3' ss Score
0.01
Exon sequences
Seq C1 exon
GTGGGTTTAAAGCCTCAGCCCTTGCTGCCAGCTTCCCAAAAAGCAGGACCACATTCTGGCAACAGGCCCGAATTCCAG
Seq A exon
GTTTATTCAGCAGCTCAGTGACAGTTATAGCTCAGAATTACTTTTTCCTCTTTTAGCTCCCAATCCCATATGCCTGCTCAGTGATGCTTTGTACCACAGGGGGATTTCCTAGCGCGAGGTGGAGCTGTGGATGCTCCCTCCAGCTGGCTGGGAAGGAGCCTGGCCTCAGCACAGCAAGACCTGTCTCTCAG
Seq C2 exon
CTGGCCGAGATGTGCCTGGAGCTGTTGGCTGGGAGCTGCTGGGGGTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009060:ENSGALT00000014746:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.923 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
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:
GGGTTTAAAGCCTCAGCCCTT
R:
CAGCTCCCAGCCAACAGC
Band lengths:
114-305
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]