GgaINT0031222 @ galGal4
Intron Retention
Gene
ENSGALG00000005246 | PAX3
Description
paired box 3 [Source:HGNC Symbol;Acc:HGNC:8617]
Coordinates
chr9:7422024-7422566:-
Coord C1 exon
chr9:7422482-7422566
Coord A exon
chr9:7422266-7422481
Coord C2 exon
chr9:7422024-7422265
Length
216 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TTCCTCCTCCTCTTGTCCAGTCT
3' ss Score
7.22
Exon sequences
Seq C1 exon
ATGACCACGCTGGCCGGGGCCGTGCCCAGGATGATGCGGCCCGGAGCCGGGCAGAGCTACCCGCGCGGCGGCTTCCCGTTGGAAG
Seq A exon
GTGAGGGCAGGAGGAGGGGCGGCGGACGGAAAGCGGGGAAGAGTTGGGGGACGGAGCGCGAGCGGAGGTCGGAAGGGGCTGCGGGGACTTCGGGAACTTCGGCCCCGGGTCCCTTCCCGGCGGCCCTCCCCGGTTGGGCGCAACAGGTGCCGGCACGCCGCGGGGCTGCGGGGTCCGAAGGAGACGTTAACGCCGTTTCCTCCTCCTCTTGTCCAG
Seq C2 exon
TCTCTACCCCTCTCGGCCAGGGCAGAGTCAATCAGCTCGGAGGAGTGTTCATCAACGGGCGGCCGCTGCCCAACCATATCCGCCACAAGATCGTGGAGATGGCGCACCACGGCATCCGGCCCTGTGTCATCTCCCGGCAGCTGCGCGTGTCCCACGGCTGCGTCTCCAAGATCCTCTGCCGCTACCAGGAGACGGGATCCATCCGCCCGGGGGCCATCGGCGGCAGCAAACCCAAGGTGAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005246:ENSGALT00000008428:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (disopred):
C1=0.931 A=NA C2=0.185
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0029213=PAX=PU(85.2=92.6)
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:
GTGCCCAGGATGATGCGG
R:
CTCACCTTGGGTTTGCTGCC
Band lengths:
305-521
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]