GgaINT0127858 @ galGal3
Intron Retention
Gene
ENSGALG00000004333 | E1BY40_CHICK
Description
NA
Coordinates
chr18:7971679-7972000:-
Coord C1 exon
chr18:7971880-7972000
Coord A exon
chr18:7971797-7971879
Coord C2 exon
chr18:7971679-7971796
Length
83 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACA
5' ss Score
8.1
3' ss Seq
GCTCTTCTGTCCGTCCTCAGGTG
3' ss Score
12.56
Exon sequences
Seq C1 exon
GAAATGCTCTAAAAGAGCAAAGTCCTGGAAGCTGCCAGATGCCCCATGCAATGAAGACGAGGACGTGCGGGCGGAGAGGCTGAGGGTGAAGGAAGCGTTGAGCAACCCCAACAGTGAGGAG
Seq A exon
GTAACACCATGCCCTGACAAGGACAGCCCAAATGCCAAACCCATCATTCTACAGGCCTGGTGGGCTCTTCTGTCCGTCCTCAG
Seq C2 exon
GTGCCGGCGATCCTGGTCAGCAGCCTGCACAAAGAGTATGATGAGAGGAGGGAGTTCCTTTTGGGGAGGAGAATAAAGAAAGTGGCCACGAAACACGTCTCACTCTGCATCAGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004333:ENSGALT00000006907:28
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:
PF0000522=ABC_tran=PU(6.8=25.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCCATGCAATGAAGACGAGG
R:
CGTGTTTCGTGGCCACTTTCT
Band lengths:
177-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]