BtaINT0109051 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008419 | PDE2A
Description
Bos taurus phosphodiesterase 2A, cGMP-stimulated (PDE2A), transcript variant 2, mRNA. [Source:RefSeq mRNA;Acc:NM_001256273]
Coordinates
chr15:52918154-52918620:-
Coord C1 exon
chr15:52918550-52918620
Coord A exon
chr15:52918277-52918549
Coord C2 exon
chr15:52918154-52918276
Length
273 bp
Sequences
Splice sites
5' ss Seq
CCGGTGTGT
5' ss Score
6.56
3' ss Seq
TGCCCTCTCCCCACCCCCAGGTT
3' ss Score
11.91
Exon sequences
Seq C1 exon
GCCATCCTGAGCATGCTGCAGGACATGAATTTCATCAATAACTACAAAATTGACTGCCCGACACTGGCCCG
Seq A exon
GTGTGTACGCCCAGCCCTCCGCTCTGTGTGCCAGCAGCCCCGTCTCTGCCTCCCTTTGCCCTCTGCTCTCACATCCATTGCTCCCTGTGCTCTGGGAAGGACCTCTGAGGATGTCTAGGGGAGGCCCAGACTTGTAATGGTGGGAGGATCCACCAGTGAGAGGCAATTCACAGAACCTTGAGAAAAGAGAGGGAATGGGGCAGGACAGAGCCTGGAGGGCTTGCTGGAGGAGGAGAGCCTGAGGCCCATGTGCTGCCCTCTCCCCACCCCCAG
Seq C2 exon
GTTCTGTTTGATGGTGAAGAAGGGCTACCGGGATCCCCCCTACCACAACTGGATGCACGCCTTTTCTGTCTCCCACTTCTGCTACCTGCTCTACAAGAACCTGGAGCTCACCAACTACCTCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008419:ENSBTAT00000011077:22
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0023314=PDEase_I=PU(11.3=64.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
ATCCTGAGCATGCTGCAGGAC
R:
AGGTAGTTGGTGAGCTCCAGG
Band lengths:
188-461
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development