BtaINT0109199 @ bosTau6
Intron Retention
Gene
ENSBTAG00000024888 | PDE5A
Description
Bos taurus phosphodiesterase 5A, cGMP-specific (PDE5A), mRNA. [Source:RefSeq mRNA;Acc:NM_174417]
Coordinates
chr6:6942801-6945170:+
Coord C1 exon
chr6:6942801-6942938
Coord A exon
chr6:6942939-6945102
Coord C2 exon
chr6:6945103-6945170
Length
2164 bp
Sequences
Splice sites
5' ss Seq
TCCGTGAGT
5' ss Score
8.93
3' ss Seq
TGTTGTTGCTTTGTTTCCAGGAT
3' ss Score
9.32
Exon sequences
Seq C1 exon
GTGCTGCTTGACCTTGCTAGCTTAATTTTTGAAGAACAACAATCATTAGAAGTAATTCTAAAGAAAATAGCTGCCACTATTATCTCTTTCATGCAGGTGCAGAAATGCACCATTTTCATAGTGGATGAAGATTGCTCC
Seq A exon
GTGAGTACAGAGTATGACTTTTTTATTTTTAGAAAGACAGAAGCTTATGGTCCTTAAAGCACTGCTTTTAAACCTCATGTTGGCCTCAGAACTCCCTCTCAAGTCCAACTGAACATGGTTGTTTATGTAAAGCTGATTAAAGCATGCGTTGTTTGGTTGGAAGGGGGTAGAGGTGAGGTTGGAGGACGCCCTGGTGCACCCTCACCTTGTCGACCGTCCACTGAGCAGTCACCACGGGAGTGTCAGCGTGCTGCTTTCATCAGGGCTGCACTACCCTGATGGAGAAGTGCAGCGTCGTGACAGTGTACAGGCCTTTTTTGCCCAGGAATAGTGGTGCCCTCTTGCTGTGAGCAGGTAAACCTGTTCTGCCTGTTTATTCTGAGTGGAATGGGATTGTGTGGAAATCATAAGGCTTGGCCCAATGGAGGCAGTGCTGTTAAAGGTACCTGTTAGTCCCAAATTCTTCCCACCAGGGAAAGTTGCTTAAGTATTCTAAGTGGTAGATTTCAAGCCATTGATTTTCATGTAAAGCAGTAAGATCTGTGTGGAAAGATGGCGTATTCTCATAGAGCGCTGCTTACTTACAGGTCAGCTGACCTTGCTGTGAGCATCAGCACCTTTGGCCTAAGGCCGTTTTCTTTTCTGCAGTTTCTTTTCCTTCTTAACTGATGAATCACTGCTTTTGGTATATTTCTTTTTGATGTAGTTGTTTGTTTTCTTTTTCCTTTAGACCCTTAGAACATGCTCTTTATTGGTGGGTTAGGAAAGAAAATAGGGATTCTTGCATAAAGTCAATTACAATCTGTACAGGATATTTGAATTGATTTTGGTGGGGGGAGTGGAGAAATGAGCTACAGTCCATAGGATTGCAAAGTCAGACATGACTGAAGTGACTTAGCATGCATGCATGGGGGGAGAAAAATAATAGTTTTTTCTATTATTTTATTGAAAAAAATTATTTTTTATAAATATAAATAAAATATATTTTAATTATAAAAAAGATTTTTAATACTTATATTTAAAATTTTTAATTATTTTATTAGATAGGACTGTGTGCTATAGCGTTATTTGAATCATTGTGTTTGTGTGTGTATAACTCTCATTAATAGGAAATCAAATGAGAATTCACTGTGCTGTAAGATAATCAGTATTCTCATGGAAATTATTTAAAATATTTTCACTCAGTTATAAATTCCTTAATATAGAGATAATTACAAGATTGTAGCTATCCTTCTGAAGTTCAGGTCTGAATTTAATGCAGTATGTCAGTTCACCATTTTTGCTCTGTGACTGCTCTTTGTCATTTAGTTTTTGAAAGTTATACACAAGGGCACTCCCTTTTTAGACCATTTAAATATCACTTTATTTAACATTCAACTTATCTTTCTACCGGTTAACAGCTATCATGGCAGCAACTGACTGGTATCAGAGTTGCTTTAAAGTATAGCTCAGCAGTATGCCCATTAATCTGTTTTGCTCACTTTTTAAAGACTTAATTTGTTGGGGGTAGCAATTAAGTGACTTGATGTTCATTTATACTGTGATTATTTTTTTATAAAAAACATTTCAACACATGAGCAAAAATCCAAATGTGAACAAGAAAAAAATGTTACTCATTTCTTCTGTTCCCACATTAAATGCATATCATGTTTTATTTGTTTCCTTCCAGTTTTTTATTCAGTTATAGTATGGGTGTAAATATGTATGCTGCTTTTCAACTTAACTTCAAAAGTACATCCCTTTGTTGCTAAAATCTTCATAATTTAATAATCTCATAAAATATTATTGAATTGTGTCTTTAAAAAAAAAAAAAGACCCAAGAATAGCAATGAATATATGCATAAAGGCTAAAACTTGAGGATTTTGAATAAATGTAGAGAAAATTTGAAGCTAACATGTTCATTAACAACTGGTAGAAAAGCAAAAACAAATAGTACTCAAGTAAGTACTTTTGTAGGTCAGTATCAGCAACAATATGGTTCTTAGTAACGGGAAGTAGGTTTGAGAGTGTCATGAAGTACGTACTTGGGTCAGTTTTGTCTGAGAAAGTGAAAAAATACAAGAAGTGGTGTCTCAGTTCCACAGACTTGTATGTCTGTGTCTAGGTAGTTTTCAGTGTATTCTCAAACTTATTTCTCAGTATGTGTTGTTGCTTTGTTTCCAG
Seq C2 exon
GATTCTTTTTCTAGTGTGTTTCACATGGAGTGTGAGGAATTAGAAAAATCGTCAGATACTTTAACACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000024888:ENSBTAT00000014479:6
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=0.087
Domain overlap (PFAM):
C1:
PF0159021=GAF=PU(19.6=67.4)
A:
NA
C2:
PF0159021=GAF=FE(13.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]