GgaINT0123425 @ galGal3
Intron Retention
Gene
ENSGALG00000000141 | E2JF30_CHICK
Description
NA
Coordinates
chr16:70504-70978:+
Coord C1 exon
chr16:70504-70785
Coord A exon
chr16:70786-70867
Coord C2 exon
chr16:70868-70978
Length
82 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGG
5' ss Score
8.05
3' ss Seq
CGCCGCCTTCGTCCCCGCAGAGC
3' ss Score
12.79
Exon sequences
Seq C1 exon
TGGAGCCCAAGGTGAGGGTCTCGGCGCTGCAGTCGGGCTCCCTGCCCGAAACCGACCGTCTGGCGTGCTACGTGACGGGCTTCTACCCGCCGGAGATCGAGGTGAAGTGGTTCCTGAACGGGCGGGAGGAGACGGAGCGCGTGGTGTCCACGGACGTGATGCAGAACGGGGACTGGACGTACCAGGTGCTGGTGGTGCTGGAGACCGTCCCGCGGCGCGGGGACAGCTACGTGTGCCGGGTGGAGCACGCCAGCCTGCGGCAGCCCATCAGCCAGGCGTGGG
Seq A exon
GTAAGGCCCCCGGGCCCTGCCCCGCCGCGGGGGGAGCGGGAGCGCGGCCCCCGGCGCTGAGCCGCCGCCTTCGTCCCCGCAG
Seq C2 exon
AGCCGCCGGCGGACGCGGGCAGGAGCAAGCTGCTGACGGGCGTGGGGGGCTTCGTGCTGGGGCTCGTCTTCCTGGCGCTGGGGCTCTTCGTGTTCCTGCGCGGTCAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000141:ENSGALT00000000194:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.011 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0765410=C1-set=WD(100=87.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACAGCTACGTGTGCCGG
R:
CTTTCTGACCGCGCAGGAAC
Band lengths:
172-254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]