BtaINT0109050 @ 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
chr15:52918550-52919160:-
Coord C1 exon
chr15:52919038-52919160
Coord A exon
chr15:52918621-52919037
Coord C2 exon
chr15:52918550-52918620
Length
417 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
CCTCCTTCTGCTCTGTCCAGGCC
3' ss Score
9.16
Exon sequences
Seq C1 exon
GTCTCTGATGACGAGTACACCAAACTTCTCCATGACGGGATCCAGCCTGTGGCTGCCATCGACTCCAACTTTGCCAGTTTCACATACACTCCTCGCTCTCTGCCCGAGGATGACACTTCCATG
Seq A exon
GTGAGCCGGCTCACCCCGCCTGACTGTGGAGGACGGACAGCCAGAGATGGAAGTTAGATGTGCATAGGAAATTCCTGGCAGGACCGAGTCATCAAGAGATGGAGGGGGCATGTGGTCTGCCAGCGTGGGCCACAGGGCCTGCCAAGGGGCTGGACTGGAACCAACGATGGCCTCAGGATTGGCATCTCCCTCCCTGTTTTTCTAAGACTTTGTGGGAACTTGGTTCCAAGAGTTCTTAGATCTCCTGTTTCTAAGTTCATGGCTCCAAGAATGCTTGGCTGTACCATTTTTTGGTTCTCAAGTTTAAAAGTTCTAAGACTCCAACATTTTGGAGGCTTCAAGAAGGGCCAAGGTAAGGGGAGTGGGGTGCATCTTGAAACTGACAGTCTCTCTGATCCCTCCTTCTGCTCTGTCCAG
Seq C2 exon
GCCATCCTGAGCATGCTGCAGGACATGAATTTCATCAATAACTACAAAATTGACTGCCCGACACTGGCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008419:ENSBTAT00000011077:21
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:
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:
GTCTCTGATGACGAGTACACCA
R:
CCAGTGTCGGGCAGTCAATTT
Band lengths:
190-607
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development