RnoINT0108942 @ rn6
Intron Retention
Gene
ENSRNOG00000016593 | Pde6c
Description
phosphodiesterase 6C [Source:RGD Symbol;Acc:1309844]
Coordinates
chr1:256866994-256870248:+
Coord C1 exon
chr1:256866994-256867094
Coord A exon
chr1:256867095-256870140
Coord C2 exon
chr1:256870141-256870248
Length
3046 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
CATAGCTGTATGTTTTCCAGGAA
3' ss Score
8.09
Exon sequences
Seq C1 exon
AGTTTAAACATCTTCCAGAATCTAAGCAAGCGGCAGTTTGAAACGGTGATCCACTTGTTTGAGGTTGCGATAATAGCAACTGACCTGGCACTCTATTTCAA
Seq A exon
GTAAGTACGAGGCTGGGTGTCAGGACACTGTCCGGCCCTGTGTTCTGCCTGCTGGGAACTGCACTGAGAGTCCAAGGTCATGGAGAAACCGCTCATTACTTAAGAGCACTTGATATTCTTGCAGAGGACTGGGGTTGGGCTTTCAGGATCCATGCTGGGTGGCTCACGGTGGCCTGTAACTTCAGCGTGAGGAGTATGATGTCCCATCTGACCTTTGTATTCACACACACACACACACACACACACACACACACACACACACACACACTATTTTAGAACAGGCTCACAAATCTGTTTTCTTTTCAGAATGCCAGTTTCCCCCCAAGATAGTTGACTGCCAGTAAACTTACTCTGTTTTTGGAGATGTAGTTTTGAAAATGCCAGCCTCTCCAGTTAAATAACCTGTGACCCAAAGAAGCTCAAACAGAAGGAATCAGTGTGCTCTGCCTAAAGAACAATATCACCAAATTGCACCCGTGGCTTTGTATCCCTGTGACTCACCATGGTTCGGAATCTAGTATTTAATTGGACTTGTTCAGTGCTTGCCCAGATTGTTCAGTGGTAGAATGCTTGCCTGGAATCTGGTATGTGGTATTTCAGGCTCAGAAATTTGATCCTGTGAGAGTTTTGGGTTGAACAATCTTGATGATTCTACCACACAAACTAAATTCACAAGACGTGAGCTTTGCACAGCAGAGGGCCAAGGAGACTAGACGTGCCAAGTGTCTGCACACTTTCTTCTAAGTAAAATATTAAGTTTCCTGGTGACCATTGATTAGAAAGAGGTGGGCTATTTACAGGATCTAAATATTAGGTGACATTTTGGCTCTGTCAAAGTTTGCCTTGCTAATCCTCCTTTAAAAAGAATCTAACTATTAAACAGAATACATATTTAATTGGATAGTTTTCAGATAGTATACAAGCTAGCCAGGACATAACATATAGATATTAAGCCTTTCTAAAGCCAGGATAGATAACAGAAAGTACTATTTAATTGACAAAAAATGATAGGCTGGGTGTTGGTGCATTTTATACTTTATAAATCACAGAATGGTAATAGCTGTGCTCAGCTTACATTTGAGAGAGAAGTTCTTTTCTTTTTAAGACAGAAAGGGTGAAATGTGGGTTGACATCCATATGCTGGTGAGGGCAGGCACGAGATAAGGCAAGGCCTGTGAGTGAAGAAGTAGGGCGGGCACAGAGTTTTGGAGAGAGGAAGAAGGAGAGGAACCAAGATAAAGGCGGAGAAGGACGACCCAGATCTGTGAGGCCTTCAAGGGCTACAGGTAGTTATGAATATTTCATAACGGACGGATTTCATAGGACAATTTGTCTTATCTAGGTGGGCAGTTTACATTAATATTAATTGGTTCAGAGTTTGTTGTGTGGACGTTTTGTGCAGTGAGGATTTACTGATATAAATCCGATGGATAAATAAAAGCAACGACGACAACGACGACAAAGACAACAAAACCAGTCCAGCTGTGACAAGTGCTTAGAATAACATGGTCTCCAGATACCCAGAGCTCACCTTCCCCCAGCGGTGACCCCCAGTGTCTCATGTGCTTCAGAGTTCTGTTTTTAAGGACAGCGAGGAAAGTCGTGGTGCAGTTGGGGCGCTCAACCCCCGTTTTATCATGAAAAGTCCTCTCAGCTTCCCAAGAGAGCCTCTGATACTGATACACCCCTTCCTTTCCACTCCTGTTCCTATGTGTGTTGAGTGTGTTTCGATATTTTCCCACGTATGACACTGGACTGACACTGGACTGTTTGCAAATACCTTTCTGCAACTCGCTTTCCCCGCACAGCGTTGTGTAAGGATTTGCCTTTGGTGACACGACTCTTCTAGTTTAAAATATTCCTGATGAGGCACTACCACTGGTTTATAAGGCATTTGCTAGCACATCAGATTCAAGACCTGACCTTGATGAAGCCAAGCAAAAATGCAATTAAGAGCTAATAAAAGGGCAGGCCAGAGGCTCAGTAAATAAGCATGAAGCTCTGAGTTTGGATCCCCTAGCACCCATGCAGGAAGCTGAATGTGGCGGGAAGTACCCGTAACTCTAGCATGGATGGGAACGGTAGAGAAGGAGGCTGGGTAGTGACCCATCCGCACAGACATCTGATGCCCAGCCTGGCCTTTACACACAGACGTGTACTCACCTGCCTCCCATCCTACACAAGTACACACACACACACACACACACACACACACACACACACATACACACGTACACACACACGCACACACACACATACACACACATACACACGTACACACACACACACACACACATACACACACACATACACACGTACACACACACATACACACACATACACACACATACACACGTACACACACATGCACACACACATACATACACACACGTACACAGACACATACACACACGTACACACACGTACACACACACGTACACGTACACACACATATACACACACGTGTACACACACGTACACACACGCACGTGCGTGCGCACACACATACACACACGTACACACACACACACACACACACACACACATATGTCCCTTTGCAGCATCAGGTCCCACCACTGACATCCCACCTGCACTATGCCAGTGTGTGCTCTGGATCAGGGCACATCTGGATTTTCATTTGCTAACCGTTTGAGTATGAGATGATACCCTCTTCCTTAGATCTGTATTTACCTAATTGCCAGTGAGGTCGGCCATCCATGAATATCGGCTTCTGTGTTTCTGTTGGGTGTGTGTGCGATGCTGGTACAGCTTGTGGCCTCTGAGTTCTTTTGCTCTTTTCTTGTCTGAACTTTTTGGTTTTTATTGTACTTAAATGTCCGTGGGTTCTCTCCACTCTGTGGTTTGCACTTTTTCTGCCTCCAGCCCTTTCTATGCCAGGGATAGTCAGAATTGCCTGCTCTCTACCCTGGCTCTTGGCCCGTGCTCGGCAGACAGCCTGAGACAGAGTGGGAACACAGAATATGAAAGGCAAGCGTTTAAGATCATTTTCTGTGGTAAAATTGTTGCATAGCTGTATGTTTTCCAG
Seq C2 exon
GAAGAGAACCATGTTTCAAAAGATTGTTGATACCTGTGAACAGATGCAAAGCGAAGAAGAAACCATCAAATATGTAACCGCCGACCCGACCAAAAAGGAGGTCATCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016593:ENSRNOT00000022317:16
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=0.027
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=FE(13.3=100)
A:
NA
C2:
PF0023314=PDEase_I=FE(14.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
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]