DreINT0118705 @ danRer10
Intron Retention
Gene
ENSDARG00000061304 | ppp1r9a
Description
protein phosphatase 1, regulatory subunit 9A [Source:ZFIN;Acc:ZDB-GENE-060503-660]
Coordinates
chr19:41571939-41573823:+
Coord C1 exon
chr19:41571939-41572121
Coord A exon
chr19:41572122-41572686
Coord C2 exon
chr19:41572687-41573823
Length
565 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TGTGTGTGTGTGTTTATCAGGCT
3' ss Score
9.39
Exon sequences
Seq C1 exon
ATTGTGGACGAGGGTCTGCCAGTGAAGCCACAGCAGTGGCAGAACCGCAGTGTGACTGAATGGACGTGTCAACAGGTGTCCTGCTGGCTCATGGGACTGAACTTGGAACAATACGTGTCTCTCTTTACTGCCAAGAATTTGGATGGAGAGCAGCTTCTGAAGCTGGACAGCACCGCTCTCAAG
Seq A exon
GTGAGGAGCACATGTGTTGAGATAAATTCATCCACTATTTGACATATTGCCTCAATATTTCAGTTTAATTATATGAAATATGCAATAATAAATAAATGATTAAATGATTTCTATTTAATTATTATTTAGAAATTAAATTTAATTTTATGTCACATAATTCAGTCTTGCAAAAATACATCAAATATTTCATATAATAATAATAAGTATCTTAAAAAATCTATAATATACTTAAAGAATCTGTTTATTGAGGCAAGTTTACATTATTAGGATTGAAGATTTGCACATTTACTTTATAACAATAATTAATTGCATTTTACTGTAATTCTTTTATTCAATGATTCTCCTTTTTTTTGCAATTATTTTCAACAATAATTGTGTCCAGTTAATAGTTGTGTTGTGTTTTGATCGCATAAACATCTATTATCCAGCCATATGCTGAAATGTGTTTTGTATAATTCATGTCCATCTGCTTCCACTGTGATAAGAAAGTTATCTTCCACAGATTAGCATAGTTTCATCTGACTCATCTCAACACCTGGTGTGTGTGTGTGTGTGTGTTTATCAG
Seq C2 exon
GCTCTGGGCATTGAGTCTTCTTCAGATCGGGCTCTCATTAAAAAGAAGCTGAAGGATCTGAAAGTGTTGATGGAAAAAGCCCGTAGAAACCGAGAGAAGCAGCGCAAGAAGGAACTGGAGCAAACTCGCAAAAACAGCAGTTCCTCCAGACCAGCAGAGGGCGCCACCGAATGACAGCTTCATTACAAAAAACAGATGAGTTCAGCATTTCACAAGAGTCAGAGTTCATCCTAAAAGGGGCTTCATGCTACCGAGCTGCCATCAGATGAATCGAAAACCAAAATTTCCAGGAATTCGTTATTTCTACTGAGCTCATTATAGCAGGATTATCGCTGCACTTTTGGTTTGACGTCTCATTGATATCTATTTATTTGCATATGGAGAATATGTACAGTATATGTTGAAGCAGAGCATATCAAGTCATCCTCCACAGATAATAACTGAGCACCTTTAGACGATGTACATATGCAGGAAGTGTGTCTAACGTGCCATTTTTCTATCCAAACCAGTTTGTTTGTTAATGGAGGGCAGAACGTTTTTAATGCATCGGCTTTGATAAAGCACAGGTCATATTGATGGACGATGTTTCCGTCGACTTTCTCTTCACCTCACAGAGTTTGAGTGCTGCTCATGAGAACCACTACAGTCCGAGTCACTGACGAAAAACTGTGAAAAGAAAGCCATTCCGGGTCAAAGCGAATTTGCAGACTTTCACTACTGTACGGATCTGCCAGTATTTAAGTCAAATACAGCTTGGCGTGTTTGTTCTTTGGAGGTTGTGTTGGCGATAGCAGATGCGATTTCAGGAATCCGCCATTTTGAACTCTTCTCCAAAGATGCGAGACTTGTATAAAAGCTGCTTCTGTCCCATAGCGACCTGCTTGTTGTCCTGTCCATCGCTCTGAGGAAGATTCTCAGTTAGACCCAAGTGCTGCCTTTTCAAGTGCTGTTTAGACTTTTACTTTATTTATATGGGTTGTCGTTACTGTCTGGACTGCACAGATTGTGTGAACACACCTCTGTTTAAGCGGCTACATCTAAAAATGTAGTAGCGCAGAAGACAAATGTGCACTTGAAAGAAAGCGCCACTTTATTTTGGAAAAAACGCTCATTTTACAAGTCACCTAGAGTTAAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000061304:ENSDART00000138687:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.164 A=NA C2=0.491
Domain overlap (PFAM):
C1:
PF0764712=SAM_2=PU(66.2=70.5)
A:
NA
C2:
PF0764712=SAM_2=PD(30.8=34.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTGCCAGTGAAGCCACAG
R:
ATGAAGCTGTCATTCGGTGGC
Band lengths:
353-918
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]