GgaINT0026649 @ galGal3
Intron Retention
Gene
ENSGALG00000001559 | ZP3_CHICK
Description
NA
Coordinates
chr10:3497189-3497633:+
Coord C1 exon
chr10:3497189-3497292
Coord A exon
chr10:3497293-3497455
Coord C2 exon
chr10:3497456-3497633
Length
163 bp
Sequences
Splice sites
5' ss Seq
GTGGTATGT
5' ss Score
7.64
3' ss Seq
TTCACCACCCTGCCCCGCAGATG
3' ss Score
9.68
Exon sequences
Seq C1 exon
GAGGGAGAACGTGAGCAGCAATGCCATCCGGCCCACCTGGTCCCCCTTCAACTCCGCACTGTCAGCCGAGGAGAGGCTGGTGTTCTCCCTGCGCCTCATGAGTG
Seq A exon
GTATGTGGGATGGCACCACGTGCATCGGCAGGGTTACCCCAGTAACTCCCAGTTACCCTACTGGGGCACCCAGCTGTCCCAAAGCCATCGCCCCCACTGCTCCCTGGCCATCACTTCTGCTATCCCTTCTCTCACCCCCTTGTTTCACCACCCTGCCCCGCAG
Seq C2 exon
ATGACTGGAGCACAGAGAGACCCTTCACCGGCTTCCAGCTGGGCGACATCCTCAACATCCAGGCCGAGGTCAGCACTGAGAACCATGTGCCCCTGCGGCTCTTTGTGGACAGCTGTGTGGCTGCCCTGAGCCCTGATGGTGACTCCTCGCCCCACTACGCCATCATTGACTTCAACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001559:ENSGALT00000002370:3
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:
PF0010018=Zona_pellucida=FE(13.5=100)
A:
NA
C2:
PF0010018=Zona_pellucida=FE(22.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGAGAACGTGAGCAGCAATG
R:
GAGGAGTCACCATCAGGGCTC
Band lengths:
250-413
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]