GgaINT0125635 @ galGal3
Intron Retention
Gene
ENSGALG00000004622 | C9orf114
Description
NA
Coordinates
chr17:5912070-5912288:-
Coord C1 exon
chr17:5912230-5912288
Coord A exon
chr17:5912145-5912229
Coord C2 exon
chr17:5912070-5912144
Length
85 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TGCCCGCAGGTTGAGGACAGGAA
3' ss Score
-5.6
Exon sequences
Seq C1 exon
GAAACGTGGGGGAGAAGATGGCGGACGGCAGCGAGGCGAAGCGGCCGAAAGGCGTGCAG
Seq A exon
GTGAGGCGCGGGGCGGTCGCTATGGTTACGGCTCCTTAAGGGGAGCGCGAGGGTAACGGCCGCTGTGCCCGCAGGTTGAGGACAG
Seq C2 exon
GAAGGTGAACTGGCGGCGCTGGAAGCAGGAGAGTAAGGCCGAGGGTCCCTCGGGGTCGTGGAGGGGAGCGGAGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004622:ENSGALT00000007359:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.100 A=NA C2=0.115
Domain overlap (PFAM):
C1:
PF093445=Cas_CT1975=PU(9.9=65.0)
A:
NA
C2:
PF093445=Cas_CT1975=FE(19.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAACGTGGGGGAGAAGATGG
R:
GACCCTCGGCCTTACTCTCC
Band lengths:
106-191
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]