GgaINT0020662 @ galGal3
Intron Retention
Gene
ENSGALG00000002722 | E1C8A1_CHICK
Description
NA
Coordinates
chr12:2306593-2306917:+
Coord C1 exon
chr12:2306593-2306734
Coord A exon
chr12:2306735-2306804
Coord C2 exon
chr12:2306805-2306917
Length
70 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGC
5' ss Score
8.69
3' ss Seq
CCACCTCCGCCTGCCCGCAGGGC
3' ss Score
11.32
Exon sequences
Seq C1 exon
GCCACCGCTCGCCCCTCAACGACTTCCAGCGCCTGCGCGGCACCGAGCTGCGGGCAGCGCCCAACGAGCCCCCACCGTCTGCACCGGCGCACGGCGCGGCCCAGCAGTGCGCCCAGCGCTGTGCCAACAGGCCGGACTGCCG
Seq A exon
GTGAGCGCCGCGTTGCAGGGAGCTGAGCCTCGGTGCTGAGCAGCGCCCTGCCACCTCCGCCTGCCCGCAG
Seq C2 exon
GGCCTTCCACCACGAGCGGCAGAGCCAGCTGTGCCAGCTGCTGCCCTGGAGCCAACGCTCGCCCGGCGCCCGGCTGCAGAAGAACATCCACTACGACCTGTACCAGAAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002722:ENSGALT00000004292:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.583 A=NA C2=0.026
Domain overlap (PFAM):
C1:
PF0002421=PAN_1=PU(51.2=87.5)
A:
NA
C2:
PF0002421=PAN_1=FE(46.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCTCAACGACTTCCAGCG
R:
CTCCAGGGCAGCAGCTGG
Band lengths:
181-251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]