BtaINT0109060 @ 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
chr15:52913333-52915212:-
Coord C1 exon
chr15:52915106-52915212
Coord A exon
chr15:52914762-52915105
Coord C2 exon
chr15:52913333-52914761
Length
344 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
CTGCCCCTATCCACCCCCAGGCT
3' ss Score
9.49
Exon sequences
Seq C1 exon
GAGAAGGCCATGGGCAACAGGCCGATGGAGATGATGGACCGTGAGAAGGCCTACATCCCCGAGCTGCAGATCAGCTTCATGGAGCACATCGCAATGCCCATCTACAA
Seq A exon
GTGAGTGAGCTCAGGGGCCTGCTGGGGACACTGCCCAGGGATGGTGTGGGAGTGGGACGGGGCTGGCTGTGGCCATCACAGCAGACACAAGCGCTGCGCTGGCCTGGCCCTGCTCCACCTCATCCTCTCCTTGTCTCCGAGCACAGCCGTCTCTTGCTTTGCCCCTAAATGTACCGTTTGCTTTATCCTTGGTCCCTTATGGAAAGAGATGCTCAAGCTCTCCTTGAGCTTCCAATCTTATGCCTCATGCTCTTGTGGAAGTTCTACCTGTGGTCCAGCCCTGATATTTCTTGCTGCTCCCAGTCTGCCTTCTGACCTCTAAACCTGCCCCTATCCACCCCCAG
Seq C2 exon
GCTGCTGCAAGACCTGTTCCCCAAGGCGGCCGAGTTGTACGAACGCGTGGCCTCTAATCGTGAGCACTGGACCAAGGTGTCACACAAGTTCACCATCCGAGGCCTCCCGAGCAACAACTCGTTGGACTTCCTGGACGAGGAGTATGAGGTGCCTGACCTGGATGGCGCTAGGGCTCCCATCAATGGCTGTTGCAGCCTTGATGCTGAGTGAGTCCCTCCTGGGACCCCTCCCTGTCCAGGCCTCCTCCCACAAGCCTCCACGGGCCTGGCCGCACGCCCTGGGACCAGAGCCAAGGGTCCTGGATTCTAGGCCAGGACTTCCCATGTGACCCGGGCGAGGTCTGACCTTCCCGGGCCTCAGCTTTCTTGTCTGTATAATGGAAGACTTCAGCCTCACTGAGACTTTGTCACTTGTCCTCTGAGAGCACAGGGGTAACCAATGAGCAGTGGACCCTGCTCTGCACCTCTGACCGCATCTTGGCAAGTCCCCACCCTCCAGGCCACTCCTTCTCTGAGGCAGCCGGATGGTTTCTTCTGGGCCCCATTCCTGCCCTACCAGACCTGTGCCCTTTCCTGTGGGGGCACCCTCACTGGCTCCCAGGATCCTCAGGCAAGAACATGAGACATCTGAGTGGGCAAAGGGTGGGTCTTAGAGACAGTTATCAGCCTGGCTGGAGGACTAGAAGTAGCCATGGGACCACCTGTGGCCCAGAGGACTGCCTTTGTACTTATGGTGGGGACTGGGACCTGGGGATATAAGGGTCCCAGGAGGACACTGCCAGGGGGCCAGTGCAGTGCTCTGGGGAGAGGGGGCTCAGGAAGAGAGGAGGATAAGAACAGTGAGAAGGAAGGATCCCTGGGTTGGGAGGCAGGCCCAGCATGGGTCAGCCATGCTTCCTCCTGGCTGTGTGACCCTGGGCAAGTCCCTTCCCCTCTCTGCGAAACAGTAGGGTGAGACAATCCATTCTCTAAGACCCCTTTTAGATCCAAGTCCCCATAGTTCTGTGGAGTCCCAGGAGAGGCCACCGAGGGTCCCTGGCCCCCTTGGGCACAGAGCTGACACTGAGTCCCTCAGTGGCCCCCTGAGTATACCCCCTTAGCCGGAGCCCCTTCCCCATTCCTACAGCCAGAGGGGGACCTGGCCTCAGCCTGGCAGGGCCTCTCTCCTCTTCAAGGCCATATCCACCTGTGCCCCGGGGCTTGGGAGACCCCCTAGGGCCGGAGCTCTGGGGTCATCCTGGCCACTGGCTTCTCCTTTCTCTGTTTTGTTCTGTATGTGTTGTGGGGTGGGGGGAGGGGGGCCACCTGCCTTACCTATTCTGAGTTGCCTTTAGAGAGATGCGTTTTTTCTAGGACTCTGTGCAACTGTTGTATATGGTTCCGTGGGCTGACCGCTTTGTACATGAGAATAAATCTATTTCTTTCTACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008419:ENSBTAT00000011077:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.083 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=FE(14.7=100)
A:
NA
C2:
PF0023314=PDEase_I=PD(8.4=28.2)
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:
GCAGATCAGCTTCATGGAGCA
R:
GGCCTAGAATCCAGGACCCTT
Band lengths:
355-699
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development