GgaINT0125065 @ galGal3
Intron Retention
Gene
ENSGALG00000001226 | E1C8X7_CHICK
Description
NA
Coordinates
chr17:819953-820607:-
Coord C1 exon
chr17:820511-820607
Coord A exon
chr17:820127-820510
Coord C2 exon
chr17:819953-820126
Length
384 bp
Sequences
Splice sites
5' ss Seq
CCAGTATGT
5' ss Score
5.8
3' ss Seq
TTTCTCTCTGCTGCCCACAGGCG
3' ss Score
11.16
Exon sequences
Seq C1 exon
GTCAGTGTGGACATCTTCAAGGGCTTCCCAGATGAGGAGAGCATCGTCAACTATACGCTGAACCAGGCCTACCAGGACAATGTCACGGTCTTTGCCA
Seq A exon
GTATGTCCCTGGGAACCAGCTCCTATACAGGGGTCCCTGAAACCACGTCCAAAGCTGTGCCCCAGGCGTGGGGCCACTGGCTCTGGGATGTTGGCTGCCTCAGTTTGTGTGTTGGGTGAATAAATGGCTCAAGCATGCCAGCTCTCTCCAATTACCTGTCCCTCTGTGCTGTGCCTTGATCCTGGCCACTGTCCTGGCTCACCGTGGGTGCCTGCAGTCACAATGGCCCCACATCCCATACCAGGGCATCCTCAGCCATCGTAGCCCTTGTCTTGCTCTGGGCAGAGACATGTTGAGCCCTGGATCTTGACCCCCACTGTGTCCCTGCCCATCACTGCAGGCTGGCCGGTGCCAGCAGGCTCTCTTTCTCTCTGCTGCCCACAG
Seq C2 exon
GCGTGATCTTCCAGACCAACAAGGACGGCTCACTGCCCCCACATGTCATGTATAAGATCCGGCAGAATTCCAGCTTCACAGAAAAGACCAACGAGATCCGGCGGGCATACTGGCGGCCTGGTCCCAACACTGGTGGCCGCTTCTATTTCCTCTATGGCTTTGTCTGGATCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001226:ENSGALT00000040504:12
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=0.017
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=FE(9.2=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(16.7=100)
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:
TCAGTGTGGACATCTTCAAGGG
R:
CCTGGATCCAGACAAAGCCAT
Band lengths:
270-654
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]