GgaINT0129967 @ galGal3
Intron Retention
Description
NA
Coordinates
chr19:4138826-4139099:-
Coord C1 exon
chr19:4139038-4139099
Coord A exon
chr19:4138956-4139037
Coord C2 exon
chr19:4138826-4138955
Length
82 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
GGTGCCCACTGTTCCCACAGGTT
3' ss Score
9.74
Exon sequences
Seq C1 exon
CCGCGATGATGTTATTGGGAAGGTGTGCATCACCCGCACCATGCTGGCAGAGCACCCCAAAG
Seq A exon
GTAGGGGACAACGGGGTGTCCCCAGCGCTGCACCCAGCCGTGTCCCCATGACCCCTGCCCGTGGTGCCCACTGTTCCCACAG
Seq C2 exon
GTTACAGCGGCTGGGTGAGCCTCAGCGAGGTGGACCCCGATGAGGAGGTGCAGGGGGAAATCCACCTCCGCGTGGAGCTCCTGGAGGGCGAGGGCGGCCAGCGGCTGCGGTGCACTGTGCTGGAGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001876:ENSGALT00000002911:4
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=0.000
Domain overlap (PFAM):
C1:
PF0016825=C2=PD(11.0=40.9)
A:
NA
C2:
PF0016825=C2=PU(9.8=18.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTATTGGGAAGGTGTGCATCA
R:
CTGGCCTCCAGCACAGTG
Band lengths:
183-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]