GgaINT0134441 @ galGal3
Intron Retention
Gene
ENSGALG00000004568 | E1BQL7_CHICK
Description
NA
Coordinates
chr21:5732310-5732730:+
Coord C1 exon
chr21:5732310-5732455
Coord A exon
chr21:5732456-5732577
Coord C2 exon
chr21:5732578-5732730
Length
122 bp
Sequences
Splice sites
5' ss Seq
AACGTGAGT
5' ss Score
9.54
3' ss Seq
ACGTTTCCTCTTCTTCTCAGGGG
3' ss Score
9.62
Exon sequences
Seq C1 exon
CAAATGGAGCTCTCCCAGATGAACTGCAGCAAGGCCTGTTGCTGGTAGTAGATTATGCAACTTGTTCCAAGACCAACTGGTGGGGAAGCACGGTGAAAACCAACATGGTGTGCGCTGGTGGAGATGGAATCACCTCCAGTTGTAAC
Seq A exon
GTGAGTCCAGAGAACACCACTCTCAGGGCTTGGCTTAACACAACCCGGCCTGATGGGAAGGAAAGCTTAAAACACAAGGAAGAACTACTCACGCCATTAACCACGTTTCCTCTTCTTCTCAG
Seq C2 exon
GGGGACTCTGGTGGTCCACTGAACTGTCAAAATGCAGATGGCGCATGGGAAGTGCATGGTATTGTCAGCTTTGGCTCTTCTCTTGGCTGCAACTATTATCAGAAGCCTTCTGTCTTCACCCGGGTCTCTGCTTTCGACAGCTGGATCAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004568:ENSGALT00000007270:6
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:
PF0008921=Trypsin=FE(20.5=100)
A:
NA
C2:
PF0008921=Trypsin=PD(20.5=94.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
TCCCAGATGAACTGCAGCAAG
R:
CGGGTGAAGACAGAAGGCTTC
Band lengths:
256-378
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]