GgaINT0051382 @ galGal3
Intron Retention
Gene
ENSGALG00000012123 | PAX6_CHICK
Description
NA
Coordinates
chr5:5264103-5264599:-
Coord C1 exon
chr5:5264558-5264599
Coord A exon
chr5:5264234-5264557
Coord C2 exon
chr5:5264103-5264233
Length
324 bp
Sequences
Splice sites
5' ss Seq
CAGGTCGGC
5' ss Score
6.32
3' ss Seq
GGGCGCTGTGCTTCCCGCAGGTC
3' ss Score
9.84
Exon sequences
Seq C1 exon
CGCTTCTCCAGGGATCGATCCTTCCCCCCGCCGCAGCCCCAG
Seq A exon
GTCGGCCGCCTCCGAGCAGCTCCGGCGGGCCGAGCCGCGCCGCGCGGGGATGCGGCGGGGACGCTGCAGGGATGCGGGGAGGACGCGGGGACGCGGGGAGGATTTTATTTCATTTTTTTACATTTTCGGGGGCGGCATAGAAAAAAAAAGAGAGAGAGAGAGAGAGAGAGAGAGGGAGAGAGAAAGCGATCCGAGGAGCCGACCCCAGCGGTGCGCAGCGCAGCCCCGGCGATGGGCTGCGCTGGGGGTTGCGGGTTTAGGGACGGGCGGTGCGCGGGGCGGGCGGTGCGGGCCGGCAGTACCAGGGCGCTGTGCTTCCCGCAG
Seq C2 exon
GTCACAGCGGCGTGAACCAGCTCGGCGGGGTGTTCGTCAACGGGAGGCCGCTGCCCGACTCCACGCGGCAGAAGATCGTGGAACTCGCGCACAGCGGCGCGCGGCCGTGCGACATCTCCCGAATCCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012123:ENSGALT00000019804:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (disopred):
C1=NA A=NA C2=0.109
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0029213=PAX=PU(34.4=91.5)
Main Skipping Isoform:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]