BtaINT0109055 @ 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
chr15:52916092-52916417:-
Coord C1 exon
chr15:52916343-52916417
Coord A exon
chr15:52916192-52916342
Coord C2 exon
chr15:52916092-52916191
Length
151 bp
Sequences
Splice sites
5' ss Seq
AAGGTGATG
5' ss Score
5.22
3' ss Seq
GTACCCCCACCCCCACCCAGGAT
3' ss Score
5.6
Exon sequences
Seq C1 exon
AGGCACCACTTCGCTCAGGCCATTGCCATCCTCAACACCCACGGCTGCAACATCTTTGACCACTTCTCCCGGAAG
Seq A exon
GTGATGGGGCTGGGGGTGGGGGGCAGGGAGTGGGAGCTGGGAGCTGGCCTGATGTGGGAGAGGTAGACCCGAGGGGTGGAGGTTCCTGAGGTTTAGGGGAGTAGGGGATGGGGTGTCTGGGCCTTGACCCTGTACCCCCACCCCCACCCAG
Seq C2 exon
GATTATCAGCGCATGTTGGACCTGATGCGGGACATCATCTTGGCCACAGATCTGGCCCACCACCTCCGCATCTTCAAGGACCTCCAAAAGATGGCCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008419:ENSBTAT00000011077:26
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:
PF0023314=PDEase_I=FE(10.1=100)
A:
NA
C2:
PF0023314=PDEase_I=FE(13.9=100)
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:
AGGCACCACTTCGCTCAGG
R:
TTGGAGGTCCTTGAAGATGCG
Band lengths:
162-313
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development