GgaINT0123810 @ galGal3
Intron Retention
Gene
ENSGALG00000004986 | CERCAM
Description
NA
Coordinates
chr17:5565129-5565421:-
Coord C1 exon
chr17:5565345-5565421
Coord A exon
chr17:5565236-5565344
Coord C2 exon
chr17:5565129-5565235
Length
109 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
ACTCTGCTCTTCCTCCCCAGATC
3' ss Score
12.26
Exon sequences
Seq C1 exon
TGGATGGTCCCCCCATGCAGCGCTCCCGGCACATCTCTGTCCCGCCCAAACCACTCACCAAATTGGGCTTTGATGAA
Seq A exon
GTAAGTGCCCCCCGTGCTGACCCCATGTCCACTGTCCCACACTGATGGGTTCCTGCACTGATGTGCCCCCCCTCCCCTGCCCTGGTGGGACTCTGCTCTTCCTCCCCAG
Seq C2 exon
ATCTTCCTCATCAATCTGGTGCGGCGGCCGGACCGGCGCCGGCGGATGCTGGAGTCCCTGCAGGAGCTGGAGATCGCTGCGCGGGTGGTGGATGCAGTGGATGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004986:ENSGALT00000007990:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.190 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0175512=Glyco_transf_25=PU(1.1=9.5)
A:
NA
C2:
PF0175512=Glyco_transf_25=FE(18.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCCGGCACATCTCTGTCC
R:
CTCCCATCCACTGCATCCAC
Band lengths:
162-271
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]