GgaINT0127866 @ galGal3
Intron Retention
Gene
ENSGALG00000004333 | E1BY40_CHICK
Description
NA
Coordinates
chr18:7968850-7969244:-
Coord C1 exon
chr18:7969165-7969244
Coord A exon
chr18:7968906-7969164
Coord C2 exon
chr18:7968850-7968905
Length
259 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACT
5' ss Score
9.01
3' ss Seq
TTCTCACACTCTTTTAACAGTGA
3' ss Score
8.27
Exon sequences
Seq C1 exon
CTTTGCTTCTATCTTGGCATATAAAATCCCTAGAGAAGACGTACAGTCGCTTTCACATTGTTTTTCCAAGCTGGAGGAAG
Seq A exon
GTAACTGAGCACTCACCACGTCCTGCCTGGGTATCTTTCTGTCTCCCACAGCTGTTCATGTGCCTTCATTCGCTGTGAAAAAGCACTTTGACATTTCCATTTAAAATCCATTGAATGTATTTGTTTCTCTGCTATTGCCCCTCTCATCTCTGTCTCTTGTGAAGCCAGAAGTAAGCACGTAAAGCTTTAAACGCTTTAGATCCAATTTCCTCAGATAGCAAAGTGTTCCTAAGTGTGTTTTCTCACACTCTTTTAACAG
Seq C2 exon
TGAAATACGCCTTTAACATTGAGGAGTACAGCTTTTCTCAGGCAACTCTGGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004333:ENSGALT00000006907:36
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTCTATCTTGGCATATAAAATCCC
R:
CTGTTCCAGAGTTGCCTGAGA
Band lengths:
132-391
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]