GgaINT0098070 @ galGal3
Intron Retention
Gene
ENSGALG00000009686 | PPP1R9A
Description
NA
Coordinates
chr2:23805027-23806325:+
Coord C1 exon
chr2:23805027-23805209
Coord A exon
chr2:23805210-23806112
Coord C2 exon
chr2:23806113-23806325
Length
903 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACT
5' ss Score
9.01
3' ss Seq
GTTTTCCCTATCTATCTCAGGCT
3' ss Score
8.1
Exon sequences
Seq C1 exon
ATCCTCGATGATGGACAGTCTCCAAAGCACAGTCAGTGCCAGAACCGGGCTGTTCAGGAGTGGAGTGTGCAGCAGGTTTCCCACTGGTTAATGAGCCTGAACCTCGAACAGTACGTTTCTGAATTCAGCGCCCAAAACATTAATGGGGAGCATCTCCTTCAACTGGATGGGAGTAAGCTTAAG
Seq A exon
GTAACTGACTGAGCGGAATGCAAGGTTAACTATATTATTTATTGTCACTTGAGATCGAGGAATTAAGAGTTCTGCCAGAAAGCAAAGGGCTTCTGTGTGTGGAATGATGATAGACTTGAGCAATATGCATAGCTTAGAAAGCCACAGCAGCATTCAGAGAAATTATCTTGTGCACTTAGGTTCAGCAGCTTCAGAAACAGGGAACTGGCTTTGTGAAAACTCTGGGTAAGTATGGTGTACCCATATTTACTGCATAAATCATAAGGGACCATATGTAAGTGGTATTTGTGTGCACATATTTCTCATCCAGCTCTGTTTTACAACAGAGCGATTTTAAATAAAAATACATCAGAAGTAGCAACTATAAAATGGATTGCTGTGATAGTGGAGTCAAAAGCTGGACACCAATTGTACTACAGTAGAGTTAAATACAGTTCTGATGTATAAGTATGCATTGGTTCATGCAGTGAAAATATGAGCCCAGTTTTATCAAAAATAACGATAGGAAGGAGTTGGAGGAGGCTCAGCGTAGCTGAAAGTCAAAGTTCAGTGTTTGCTTCCTGAAATTTCACCAAAAAAGTTGGAAGACAGCAAGGGAACTTTTGACTAAGGAATAGCAATGAGAATTGGGAAGTCGTGTTCTTTGTAGACTTAGATGACCTCAGGCAAATAGTTTAATATGTCCTTGCCTCCTTGCCTCAGTGAAATGAATATAGTAGAACTTTGGTTGCAGTGAGATCTCCTTTAATATTCTATAAGTGGAAAGGATGGAAACTAATTCAGAACTATAAAATGCTACTAAAATTTGACTTTGGTAGTCAGGATATAAAAAATAGAAAGAATTGGTGATAGATTAAACCATATGAAAATCTTCTTAAATTTTGTTTTCCCTATCTATCTCAG
Seq C2 exon
GCTCTTGGTATGACATCTTCCCAGGACAGGGCAATCGTTAAGAAGAAGCTAAAGGAAATGAAAGCATCCCTGGAGAAAGCTCGCAAAGCCCAAGAGAAAATGGAAAAGCAAAGGGAAAAGCTTCGGAAGAAGGAACAGGAGCAACTGCAGAGGAAATCGAAGAAAACAGAGAAGTCTTCGTCAGAAGCAACAGAGGGCACTAATGAGCAGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009686:ENSGALT00000015764:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.426 A=NA C2=0.929
Domain overlap (PFAM):
C1:
PF0764712=SAM_2=PU(66.2=70.5)
A:
NA
C2:
PF0764712=SAM_2=PD(30.8=28.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCAGGAGTGGAGTGTGCAG
R:
CACTGCTCATTAGTGCCCTCTG
Band lengths:
344-1247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]