GgaINT0127857 @ galGal3
Intron Retention
Gene
ENSGALG00000004333 | E1BY40_CHICK
Description
NA
Coordinates
chr18:7971880-7972438:-
Coord C1 exon
chr18:7972347-7972438
Coord A exon
chr18:7972001-7972346
Coord C2 exon
chr18:7971880-7972000
Length
346 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
CAGTGTTTTCTTCCCCTTAGGAA
3' ss Score
10.33
Exon sequences
Seq C1 exon
CCCTATTTACAGTGCATCGTGTGGCTCTTCCTGCTGCGGTGCTTCGAGTTGAAGAGCGGAGGAAGAACCATCAGAGAGGACCCATTCTTCAG
Seq A exon
GTGGGTTTCTCTGTTGAGTTGACTTTTAAGGAGTAGTGCGAAGGACCAGTTTTTAAAAACAGCACTGGTTGTTGCTATAGCTATAGGGGATGTCACAGGAGATGAAATAGCTGTGTTGTATCCCATCCCAAACGTCTGAAGGATTTGTTGTCATAGCATCATTTGTCTGAAACCCAGTCAGTAAAGTGCAGAAATGTATTTATTTATTTAAAGTCATCTTTGTGCAAAATTGGGAATCATAATGGCAATCTATATGAAAATAAAGAGTTTTTGAATGCAGAGTTTTTCTCCCAAGCGCAGAATTTTTCACCTGACTGCTGACATCCCAGTGTTTTCTTCCCCTTAG
Seq C2 exon
GAAATGCTCTAAAAGAGCAAAGTCCTGGAAGCTGCCAGATGCCCCATGCAATGAAGACGAGGACGTGCGGGCGGAGAGGCTGAGGGTGAAGGAAGCGTTGAGCAACCCCAACAGTGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004333:ENSGALT00000006907:27
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:
PF126982=ABC2_membrane_3=PD(3.0=35.5)
A:
NA
C2:
NO
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:
TTACAGTGCATCGTGTGGCTC
R:
CTCCTCACTGTTGGGGTTGC
Band lengths:
207-553
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]