GgaINT0125066 @ galGal3
Intron Retention
Gene
ENSGALG00000001226 | E1C8X7_CHICK
Description
NA
Coordinates
chr17:819764-820126:-
Coord C1 exon
chr17:819953-820126
Coord A exon
chr17:819867-819952
Coord C2 exon
chr17:819764-819866
Length
86 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
TGGCCTCCCCTCCTCCCCAGACA
3' ss Score
9.82
Exon sequences
Seq C1 exon
GCGTGATCTTCCAGACCAACAAGGACGGCTCACTGCCCCCACATGTCATGTATAAGATCCGGCAGAATTCCAGCTTCACAGAAAAGACCAACGAGATCCGGCGGGCATACTGGCGGCCTGGTCCCAACACTGGTGGCCGCTTCTATTTCCTCTATGGCTTTGTCTGGATCCAGG
Seq A exon
GTGAGTATCGGCTGCCTGACCAGCTGCCTGTGCCCCTCAGCCCCTACCTGTGCTGTCCGCTCAGCCTGGCCTCCCCTCCTCCCCAG
Seq C2 exon
ACATGATGGAGCGTGCCCTCATCAACACATTTGTTGGCCATGATGTGGTGGAACCTGGCAACTATGTGCAGATGTTCCCATATCCATGTTACACCCGGGATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001226:ENSGALT00000040504:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=FE(16.7=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=PU(6.5=42.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGCAGAATTCCAGCTTCACA
R:
GCCAGGTTCCACCACATCATG
Band lengths:
174-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]