GgaINT0127860 @ galGal3
Intron Retention
Gene
ENSGALG00000004333 | E1BY40_CHICK
Description
NA
Coordinates
chr18:7971126-7971549:-
Coord C1 exon
chr18:7971458-7971549
Coord A exon
chr18:7971302-7971457
Coord C2 exon
chr18:7971126-7971301
Length
156 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAG
5' ss Score
7.1
3' ss Seq
CTTCTACATTTCTCATGCAGGTC
3' ss Score
10.03
Exon sequences
Seq C1 exon
GAGAAATCCTGGGGTTGTTGGGACCCAATGGAGCTGGGAAAAGCACACTGATTAATATGCTTGTTGGAGAAGTTGAGCCAACCAGTGGGCAG
Seq A exon
GTAGAGCTTTTCTGCAGACATTAACAGAAAATGAATTCATGTTGCATTTATTTTATTAGTACTGGTCTTCTTGGATGTCTTTTGTAACGTGTTAACACACACAAAAAACCAGTTCCAAAGCTTACAATGTTGTCAACTTCTACATTTCTCATGCAG
Seq C2 exon
GTCCTGATGGGAGGTTGCTCTCCTGGAGGGAACAGCGAAGATGACTCCATTCAATTTGTGGGGTACTGTCCTCAAACCAACCCTCTCTGGCCAGATATCACCCTGCAGGAGCACTTTGAAATTTATGGTGCTATCAAAGGAATGAGTCAGGCTGACGTTAAGCAAGCGATAAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004333:ENSGALT00000006907:30
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=0.136
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(20.5=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(39.7=100)
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:
GGTTGTTGGGACCCAATGGAG
R:
GCTTGCTTAACGTCAGCCTGA
Band lengths:
247-403
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]