BtaINT0109048 @ 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
chr15:52920027-52920876:-
Coord C1 exon
chr15:52920764-52920876
Coord A exon
chr15:52920105-52920763
Coord C2 exon
chr15:52920027-52920104
Length
659 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGC
5' ss Score
5.03
3' ss Seq
TTCCCTCTCTCCCCCACAAGTCC
3' ss Score
5.75
Exon sequences
Seq C1 exon
AGGTCATCGGTGTGGCCGAGCTGGTGAACAAGATCAATGGACCATGGTTCAGCAAGTTTGATGAAGACCTGGCTACAGCCTTCTCCATCTACTGTGGCATCAGCATTGCCCAT
Seq A exon
GTGAGCGGGACAGGGGCAGGCCCATGCAGGACCCTCTGTTCTCTCCACAATGGCCCTCCTTGCTCTGTCCAGATGGGTTTGCGCCCGCCCCTGGGGCTCAGAGCCCTGCTGCTGGGTTGCTGTGCAGTCTTCAGTACCTACTGGTCACTTCTGGCCTCAGTTTCCCATCAGAAAATTGGGGATACTATTTCCAATCCTGTCCAGTTAGCCTCCTAGGACTATGTTTTATTTCCCCCTTTTCCGAAAGCAACCTCAACCTGAGCCCCTGTTTAGCTTCTTGTGGGGATTGTTGGGTCTCATTGTCCATAACTGGCAGCTCTGACCCGGGAATCTGACCCCTAGATCCTTAACGCTATCCCCCCTCCTTGCTTCTTTTTCTCCATTAGGGGCCTCAGGCTCCATCACTGAAGCTGGGGCAGGCTCAGGAGAGCATGCAAAGTGCTAGATCAAGTGCTAAGAGGCCCTGGGGAGGAGGAGTGAGGGCAGGTCTGGATGAAAGTTGGAGAGGGCTCCTTACTCTGGGCTGGACCTTGAAGGCTCAGACTAGGCCCAGCATGGGACAGGAGTTGGGGGAGGTTCTATCTGATCCCTTTGTCCTGGTCCTGGGTATTTCACAGCCACCTTGCTTGAGCCCTGTCTTTCCCTCTCTCCCCCACAAG
Seq C2 exon
TCCCTCCTATACAAGAAAGTGAATGAGGCGCAGTATCGCAGCCACCTTGCCAATGAGATGATGATGTACCACATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008419:ENSBTAT00000011077:19
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:
PF0159021=GAF=PD(25.0=92.1)
A:
NA
C2:
NO
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:
GTGTGGCCGAGCTGGTGAA
R:
CTTCATGTGGTACATCATCATCTCA
Band lengths:
182-841
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development