BtaINT0116708 @ bosTau6
Intron Retention
Gene
ENSBTAG00000024426 | PPP1R9A
Description
protein phosphatase 1, regulatory subunit 9A [Source:HGNC Symbol;Acc:HGNC:14946]
Coordinates
chr4:12377755-12379981:+
Coord C1 exon
chr4:12377755-12377874
Coord A exon
chr4:12377875-12379798
Coord C2 exon
chr4:12379799-12379981
Length
1924 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGT
5' ss Score
9.81
3' ss Seq
GCATAACATTCCTACCTCAGATC
3' ss Score
5.49
Exon sequences
Seq C1 exon
AATTTTACCTTCAATGACGATTTCAGTCCTAGCAGCACCAGTTCAGCAGACCTGAGCGGCCTGGGAGCAGAGCCCAAAACGCCCGGACTCTCTCAGTCCTTGGTGCTCTCATCCGACGAG
Seq A exon
GTATGTGCATGGCACGGGCGGCTGAGCTGCCTTCTCAGATCGTGCACGTGACCCGTAAACTGTCGCAGACAAAAACGTTTTCAGGCAGATTTTGCAGATCAGTCATCAGGACTATGGTTTCACATTTGATGTAAAAGCCTTGTGATTTCGCCCACTGTCTGCCTCAACATGGAAGCCACGTTCTGTCTCTGAGCCCCTTTAAGCTGTCCAGGGAACTCCTCGGCCTTTCCTGGATGTAAATGGGACGGCCCTCCACAGAGGGGTGCGGCTGGGTTGCTGAGCGCTGCACAGCCCACCCTTCCCCTCGCTCAGCTTCTTCACCACCCCCGCTGGTCCCTCCAAGTCAGGCGTGGCCCCTGGTTGGGGATCACCACAGGGGACGGGGGAGAGGTGTGATTCTGATCAGGAGGGAGCAGGAGGGAAGACCTTTACTTAGAAGCCAGGGTCAGGTGGGTACTGTGATGACTTCTCGGGAGATGACTGTGTACAGGAGAGGCAGAAAGTTAGTCTGGTAATTCATGTGACTCAGTGCCCCGAGAGATAAGGAGAAGAAAGAAATACCAGTACTAGAAGCGGGCTGGGGTCGGGGAGAGAAGCGCGATAAGTAAAGATAGATTCACCCAAAATATCTGTTCCTAGTTACTTCTTTCTAACATGATTTTTGCTTTGTAAAACTTTTATTCCTCTTAAATTTTTCTGTCCGTATTCTTCAGACCTGGCATGATTTTAATTGTATGGAAAATGTGTACTGCATATGCGTGCTTCCTATAACACTTCTCTTTTTGATTCCTTTGTTGCTCTCTCACTCAGAGCCTGGATATGATAGATGATGAGGTGAGCTCTCAGTGGGCGGTGTGTGGTGGCTTATGGGGTAGCGTCTGAAGCTTCTTTTCTTTCTTTGTAATGATTTAAAATCAAACTAGACAGGAAGTGTTCCCCTGCAGTGGGTTTCCTCATGTTAAATAGTTTCACTCTCTGCCCTTGTCTCAATCTTAGTGGAAAAGACATTCAAAAGGATCTCCACCTCCAGAGCCCCTTGGTGTGTCTCCCACCACCATTAGCCTGACACAGACCATTGCGTTTCACCCCCTTGCCCTCATCTCAGCTTCCCCATTTCCTCCTGTGTTCCCTGCATGGTCACTAAGGTGCTCCCATCTCTCTCCCAGATTTATCACCATCGTCATCTCCTCTCAGCCTAGTGGGTCTTAAAACCAAGCTGCCTTTGCAGTCTTCATAGTGTTCTCCTGTGTTGGACAGAGCCAGAGATTTAGAATAAACTACTAAGGGCTGAGCTCTGTCACTTGCTAGCTGCATAATCTCGGACAGGTCTGTAGACTTTCTGAGCTTCACTTGCCTCAATTATTAAAAGTAATTTGATAATTTGTGAATTACCTATCCCACCTTCCTTACAGGTTTGCTTGCTGCTCAAATGAAATAATGGCCGTGAAATTTCCCCTACTAAGAATGCTTGAGGGCTTACTGCTCCCCTTCTAAGTAAAATATATACCTCAATATTTTAAAATGTATCTTTACGTATCTCTAACGTCTTAGCAGAGGACCAATGCAGAGCAGTTCATTACATACAGAGATAAATGACGTACTTGTTTTCTGCATCTGATAAGCTTTCCAAAGTGGTTTAATGTAAAAACTTGTGATATTAAATGTATTTTTCAGTTATTAACTTCCTACCTACATTAAAATGCTGCTTTGTTTGGGGGAATTTTTAAATTTCCAAATACCTAAGGAAACTGTAAAGGTGATCACTGTGTGTGTGTCACACACAGCTAGACCCATTCGTTTACTCTAGGGCTTAAAAGCAGGTGTGGCTCTAGTAGGCAAGAACTGGCTTTTCGATAGCATCACATTCCTACTGAGCTACAGCTTCTCGGTCCTTTAACAACCCTGCATAACATTCCTACCTCAG
Seq C2 exon
ATCCTTGATGACGGACAGTCTCCCAAACACAGTCAGTATCCGAATCGGGCCGTTCATGAATGGAGCGTGCAGCAGGTTTCTCACTGGCTAATGAGCCTAAATCTGGAGCAGTATGTCTCTGAATTCAGTGCCCAAAACATCACTGGAGAGCAACTCCTGCAGTTGGATGGAAATAAACTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000024426:ENSBTAT00000020761:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.550 A=NA C2=0.328
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0764712=SAM_2=PU(66.2=70.5)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTTTACCTTCAATGACGATTTCAGT
R:
CTTAAGTTTATTTCCATCCAACTGCA
Band lengths:
302-2226
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]