DreINT0118719 @ danRer10
Intron Retention
Gene
ENSDARG00000079366 | ppp1r9ba
Description
protein phosphatase 1, regulatory subunit 9Ba [Source:ZFIN;Acc:ZDB-GENE-091006-1]
Coordinates
chr3:23177265-23178729:+
Coord C1 exon
chr3:23177265-23177369
Coord A exon
chr3:23177370-23178593
Coord C2 exon
chr3:23178594-23178729
Length
1224 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGG
5' ss Score
7.66
3' ss Seq
TGTGTGTGTGTGTGTTGCAGGTT
3' ss Score
12.27
Exon sequences
Seq C1 exon
GATCCAGGTGAATGATTTGATCGTGGAGGTGGACGGGACCAGTCTGGTGGGTGTGACGCAGAATTTCGCTGCATCAGTCCTCAGGAACACCAGCGGCACTGTCAA
Seq A exon
GTAAGGCAACTGAAAGCATTTGCATATGCACTTAATTTGTTTTGCCAAGTCATATGCATTTGAAGACACAATAACACAATAATATAATAACAATAATAACAATTTTAACACAATATTAAACATACTAATAATAACTGAATTATTTTGTCTTTACCATGGTGATTGTACATAATATGTCACTAGTTATTTTGTAACATACTAGTTTTCAGTTCAAAATGCTATTTAAAGGTTTAACTAGGTTAACTCATCAGCCTCATCAGTGGTCAATTTGGCAGGTCAAGTTGTTTGTTCTGCAGCCAGTCAAAAAAATTATACTTTTGTAAGGGTGGTAATAATATTGACCTAAGCAGTTTTGAATAAAAAAAAAAATACTTGTATATTAATAACTTGTATATGAAAAAGTTTATATATTTATTTTAATGTTTAATTCATTCCAGCAAAACTAAAAATGTATGACTTTAAACATCACTCAAAAATATAAACGTTTGATTCATGATTATTATTCTGTCCTATTATTTTTGGTCCCTTAACAAGTAGGAGGCACATATGCCAACTGTTGTGATTCCTACCCCATTCACCTGATTTGCTTGTGAATACCCTCAAATTAAAGCTGACAAATCCATTGAGTTGGTGTAGAGAGCCAAAAATGTTAGAATTATGTCGGTGTCCAAATATTTATGGGCCTGACTGTATGTATAAAAATGTAGCATTTATGGTCAGGTGTTCGAGTAAAACATAATTTTTGTTTCATTCTGTAAACTATTGATAAAACTTTCAGCAATATTATATTAATCTTTAGACATAATATCAGCTGCCAAAATGTAAATAAATTGACGTTAGGTTTGATAGCCCTAAATTTTTAGTCACTTCAAATGATGAACATTTGTTATTATATATTTTTTTCATTTTCTGAAAAAGCTAAAACACTGTAAATGGCAATATTTTTGAAGTTTAGAAGAACTATCATCAACATTTTATTGCATGAAGTGTGTATTAACATTTTGCTCAAACAGAGTAGTTTCTTAATTTTGAAATACCCTTTAAAAGTTTCCTGTTAAATTTTTTTTCTGAGCAAACAATAATTACCTTGATTAACAAAATATACGTTTTTGCTACTGTAATTGTGTGTATATTTTCATGAAGTATCCTCATTTAAAACTGAATAAAGTAAAAATGGTTTGTGCTCACCTGATTGTCTGTTTTTTGTGTGTGTGTGTGTTGCAG
Seq C2 exon
GTTTGTGATTGGCCGAGAGAAGCCGGGGGAACAGAGTGAAGTGGCCCAGCTGATCCAGCAGACTCTGGAGCAAGAGAGATGGCAGAGAGAGATGATGGAGCAGCGCTACAACCCCTACATGGAGGAGGATGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079366:ENSDART00000156032:5
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=0.696
Domain overlap (PFAM):
C1:
PF0059519=PDZ=FE(40.7=100)
A:
NA
C2:
PF0059519=PDZ=PD(4.7=8.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAGGTGAATGATTTGATCGTGG
R:
TCTTCATCCTCCTCCATGTAGGG
Band lengths:
238-1462
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]