RnoINT0108876 @ rn6
Intron Retention
Gene
ENSRNOG00000014443 | Pde5a
Description
phosphodiesterase 5A [Source:RGD Symbol;Acc:620995]
Coordinates
chr2:227004260-227006353:+
Coord C1 exon
chr2:227004260-227004385
Coord A exon
chr2:227004386-227006258
Coord C2 exon
chr2:227006259-227006353
Length
1873 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTT
5' ss Score
8.17
3' ss Seq
TCCAATGCCTTTGCACACAGAAC
3' ss Score
6.39
Exon sequences
Seq C1 exon
GTTCTTTGCCGATGGATTTTGAGTGTCAAGAAGAATTATCGGAAGAACGTTGCCTACCACAATTGGAGGCACGCCTTTAACACGGCACAGTGCATGTTTGCTGCTCTGAAAGCAGGCAAGATTCAG
Seq A exon
GTACTTCACGGCGCCGTTCAGATTCCTGCTCAGCGGAACTGACAGCCTATCTCTTCAAATTATCTTCAGGGCACTCTTATAGTGATTGAATAATTTACCAAATAGTGACTTGTGGCTGGTTGAAAATTAGCACGGGACCATAGTTGGCCACTAACTTTATTTCATTTGTAATAAAGGTTATGTAGTGAAATTCCCATGTTACATTTAGTAATCCTTGGGCAAATAAATATTTCCATTAGAGGAAGACAGTGAAAAAAAAAACATTACATTTCTCATTTCACCGTCAACTGCTCCTTAGTAAAATTACTCAAAAACCACCAAATGCCATCGTGAATGAGCTCATTGTCTGTGGCACTCTGGTAGAAGGCTGTCCCTTCTAAAAATGCTGTTTCAGACAGGTTTTGTTTCATGTGCCTTGATCAGAGCCTGAGTAAAAGAAAGATTTGTGCAGAAAATACTCACACAACAGTGTCCCTTTCCAGCCAAATCCTTTGTATCTCTCTCCTTAGATTTCATCTTCAGAGGGAAGTGACTAGTTATTCTAAGTAAGTGATCTTAGGCATCTGCTACATAATTCAAAATCTGAGCCTCCCCGTTTCAAAACATAAATTTTAAAAATATTAATCTCTTATCAATATTATCCTCCTTTCATAGGTTGCACATTTGAAGTGGCCAGTTTTAAAGGACACATCTGGGCTTGGGTTGGGCTAAGCGATCGGACACTAGAACACCATGTGTACAGCCTTGGATTCGATTGCAGAACCATTGTCTGGGCAGCTATACAAATAACACAATAGCTCTTTTAATCCCATAGAAAATTCTGTAGGAAAAGGATATGCTTATCCTGGGTTGACCATGAGTTCTAGCAGAAAGCTGCCAGTGCTTTTCATGAAGAAGAACGAGATGACAGTTTTCACACATGGTCCAGAGCTCACAGTGCTGGGATCCCCATAGGATAGAATGGTGTGGCAGTCTAGCTCACATTTCATACACTGTATCACTGACAACTGGCATAGTACTGTAAATAATATAAATGACAAATAATCAAAAATAACCAATATGTAGCATAGGAATATAGTATGCAAGTTTTGAAAGCCATTTTTTTCCAGTGATTTAATTTCTACTATTTTATTTAACAGTCACATTGTCTTGGTTGCTTAACAATATAGTAGCCTATCACAGGGAGGAAAATAATGGTTACAGAAAACAATAGGGAAAATATTAAAGTGTGTTACAATCATTCCAATATGTAAACATGAGATTCATGGCATTAACTATGGTGGGTATGTTCTCCTCCTCCTCTTCCTCTTCCTCCTCCTCCTCCTCCTCTTCCTCCTCCTCCTCGTCTTCTTTCCTCTTCCTCCTCCTCCTCCTTCTCTTCCTCCTCCTCTTCTTTTTCTTTCCTCTTCCTCCTCCTTCTCCTCCTCCTCTTCTTCTTCTTCTTCTTTCCTCCTCCCTTTCCTCCTCCTCTTCCTCCTCCTCCTTCTTCCTTTTCTGCTTAAAAAATTATGTAGCGTCAGGATGTGTTGGCATGCACATCTGTCATGGCACAAGTGGAGGTCAGAGGTCGGCTTTGGGAGGTGGGTCTGCCTGTCTGTCCTGGCTCCTTTCGTTACCAGACCTGAGCTTACATTCAGAGCATACACTTTTATCCACTGAGCCGGCCTACTGTCAACAGGTTACTCCTTTCTGTTGTTCGGTGACCTTTGTAAAAGCTCATTGTGAATGACAACATGAACGGTCACCTGCAGAGTAGAATTTCTGGAGAGCCCTCTGTGGCCACACACAAGTACAGGAATGAATACCGAGAAGTCGTAGGAGAATGGCCTGCCCCACGCTTCATCTCTCTTCCCTCCAATGCCTTTGCACACAG
Seq C2 exon
AACAAGTTGACGGATCTGGAGACGCTTGCATTGCTGATTGCCGCTTTAAGCCATGATTTGGACCATCGTGGTGTGAACAACTCATACATACAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014443:ENSRNOT00000019638:13
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=PU(26.4=54.8)
A:
NA
C2:
PF0023314=PDEase_I=FE(13.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCCGATGGATTTTGAGTGTCA
R:
CGCTGTATGTATGAGTTGTTCACAC
Band lengths:
215-2088
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]