GgaINT0026652 @ galGal3
Intron Retention
Gene
ENSGALG00000001559 | ZP3_CHICK
Description
NA
Coordinates
chr10:3497926-3498403:+
Coord C1 exon
chr10:3497926-3498017
Coord A exon
chr10:3498018-3498272
Coord C2 exon
chr10:3498273-3498403
Length
255 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGT
5' ss Score
9.3
3' ss Seq
GTGCTGCCATCCTCCTCCAGCTG
3' ss Score
9.78
Exon sequences
Seq C1 exon
ATCTACATCACCTGCCACCTGAAGGTGACCCCAGCAGACCAAGGCCCAGACCCTCAGAACAAGGCTTGCTCCTTCAATAAAGCCAGAAACAC
Seq A exon
GTGAGTAGCTGAGGCACAAACCAGGGTGTTTCACAGGCTCCAACTTAGGGGCCAGCACCAGCCCAGACATGGGACACAAACCCTCTGTGTGGGTCTGGGAGGTGGTGGATGAGGCGCCACCTGATGCTGGGACACCACCTCACGCTCCTCCAGCGTGTGTTTGCCAATGTTCTTGGGGTCCTTTGGGCAGAGAGGGGGGAGGGGGGTTGCCGGGGGTCCCAACTCACCGGTAACAGTGCTGCCATCCTCCTCCAG
Seq C2 exon
CTGGGTGCCAGTGGAAGGCAGCCGGGATGTCTGCAACTGCTGTGAGACAGGCAACTGCGAGCCGCCTGCGCTCTCCCGGAGGCTCAACCCCATGGAGAGATGGCAGAGCCGCCGCTTCCGTCGTGATGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001559:ENSGALT00000002370:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.258 A=NA C2=0.222
Domain overlap (PFAM):
C1:
PF0010018=Zona_pellucida=PD(9.6=80.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTACATCACCTGCCACCTGA
R:
GCATCACGACGGAAGCGG
Band lengths:
220-475
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]