BtaINT0116710 @ bosTau6
Intron Retention
Gene
ENSBTAG00000024426 | PPP1R9A
Description
protein phosphatase 1, regulatory subunit 9A [Source:HGNC Symbol;Acc:HGNC:14946]
Coordinates
chr4:12379799-12381524:+
Coord C1 exon
chr4:12379799-12379981
Coord A exon
chr4:12379982-12381314
Coord C2 exon
chr4:12381315-12381524
Length
1333 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
3' ss Seq
TGTGTGCGTTTCCTTCTTAGGCC
3' ss Score
11.33
Exon sequences
Seq C1 exon
ATCCTTGATGACGGACAGTCTCCCAAACACAGTCAGTATCCGAATCGGGCCGTTCATGAATGGAGCGTGCAGCAGGTTTCTCACTGGCTAATGAGCCTAAATCTGGAGCAGTATGTCTCTGAATTCAGTGCCCAAAACATCACTGGAGAGCAACTCCTGCAGTTGGATGGAAATAAACTTAAG
Seq A exon
GTAAAGAACTGTATGTTACCAAGTATAATCTGTATTACTCATAGCACCTGAAATGTTTCCATTAGATAAGAGCCTTCTGCATATCTGAGAGGTACTTCTCATCCACGGTCAGCAGAGAGGACATTGAATCATTTCCCAGTGGTAAAGGAGGTTTTGGAAAATTGTTGGGTTCTGAATTAAACAATAGGCTGCTAAGCAGGAGCGCTAGAGGTTCATCCATTGCTTCTGCCAAACAGCACATGGTCCATGTATTGCCTCTGCTTACTTCCTCTGTAGTGTGAGTTTTAATAATGGCCAATGTGGACTCTCCCATGACATTAAAGTTAAAATCCAGATCCGTGAATCTCCCCTTTTGAAGTCCTTTCTCCTCCACCCTCACTGTTCCCTGGGTACCACTCCAAATCAGGACTGTGTTCTCCCCAGACCTTTGTCCTCCCGCTGCAGCAGGCCATGTCCTCCCTTCCCCGGCCATCACGCTCTCATTTTCACCTGTCCCGCCTATCTCCTTTAGAGTCTGAGGTGGCACCTACCCTGTGGAAAAAGGGCAAAAGGAGCTCACAGCCAGCCCACCACCCCCACGCAGGCGCCCTGCTGGGCTGATGGCAGCCGAGTATCACTTGACAGTCTTGAAAAGGTTAGAGCTCAATCAATAGCCTGTGAATATGAAGGCCCATCGACAGGCCTGTCCCTGTTGGGGAGATGGATGCATCCTGCTGTTGATTCTGAAGGTCGTGAAACACTGAAAATATGTAACCAGCTCCCCTTATTCTGAATTCCAGGCTTATCGAGCAAGCTCCTCATTATGATCAGGCTTCCTTTACGGGTCTACCTGCAGGGAGGGAACGGCTAGTCATGTTGACACCAGCGCTGTTGTCCTGGGAGGCATGTTTGGTTTCCATTGTCAGTGAATGCATTGCTAGAAGGGAAGCCGTTCCAGTCCCTCCTGCCCTTCTTCGAGCCCTCCGAGATGGGTGGCAGGGGCCTGCTCCGAGCTTGCAAAAATAGTGATGAGTTTAGCAGTACAGCCCAAAGGTTGGAGAAGACAAATTGTGCCCTTCCGCTGTTCATTTGCCCATTAACTACCAGTTCAGAAAGCATTTACTTGCTGAGGTTTACACTGTACTGTGCTCAGGACTCCAAAGAGCAAAAGAACAAGTAAAGCTCAGCCCCGCAGTACATAGACCTTTAGCAAATGTACTCCGCCCTTCCTCATTTTCTACCTCTTGGATTATGTTTCTGTCAGTTCCTGAGTTTGGACTATCTCGTGATATCAGCCTCCTCATAAACGGGGTCATCAGTTTTCAGATGGTTTGTGTGTGCGTTTCCTTCTTAG
Seq C2 exon
GCCCTCGGAATGACATCATCCCAGGACCGAGCCGTGGTCAAAAAAAAACTGAAGGAAATGAAGGTGTCTCTAGAGAAGGCTCGGAAGGCCCAGGAGAAAATGGAAAAACAAAGAGAGAAGCTGAGGAGGAAGGAACAAGAGCAAATGCAGAGGAAGTCTAAGAAGACGGAGAAGATGGCCGCGGCCACAGAGGGTGCTAGTGAGCAGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000024426:ENSBTAT00000020761:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.328 A=NA C2=0.903
Domain overlap (PFAM):
C1:
PF0764712=SAM_2=PU(66.2=70.5)
A:
NA
C2:
PF0764712=SAM_2=PD(30.8=28.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGACAGTCTCCCAAACACAG
R:
CGGCCATCTTCTCCGTCTTCT
Band lengths:
353-1686
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]