RnoINT0108940 @ rn6
Intron Retention
Gene
ENSRNOG00000016593 | Pde6c
Description
phosphodiesterase 6C [Source:RGD Symbol;Acc:1309844]
Coordinates
chr1:256854410-256860916:+
Coord C1 exon
chr1:256854410-256854519
Coord A exon
chr1:256854520-256860828
Coord C2 exon
chr1:256860829-256860916
Length
6309 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
CGTTATCCTCTTCTTCCTAGGTC
3' ss Score
9.67
Exon sequences
Seq C1 exon
ACTGGGAGACTAAAGAAATACTACACAGACCTCGAAGCTTTTGCCATGCTTGCTGCTGCCTTCTGCCATGACATTGACCACAGAGGAACCAATAACTTGTACCAAATGAA
Seq A exon
GTAAGTGAGGGTGCGTGCTGTGCTGACGGAGGCTGGAAGATGCTGGGGAGGGATGGATGCTCCCCCTCCTGTCCTCTGAGACCTGGAGCCAGTCACTTCTGCTGCTTTTAGTCTCAGGAGTGTTGCATCCCCCCCTGAGCTTCAAGCTCGGGATATCTGCTTTTTTCCCATGGTGTCTGCCTCTCTCCCTCTCTCTGTCTCTCTCTCTCTGTCTCTCTCTCTGTCTCTCTCTGTCTCTCTCTCTCTGTCTCTCTCTCTGTCTCTCTCTGTCTCTGTCTGTCTGTCTCTCTCTGTCTCTCTCTCTGCTTCCACTTCTCAGGTTCCCAACTTTGTTCACATAACTTTAATCAGGGAATCACATTCAATTTTCCTAGTGGATTAAATCTCCCTTGCTCAGGTTAGAAAACATATCTTCTGGGGCTCCTAATCCTTCACTTCCTGGTCCTTTGGTTCCTCCACTCCCTCTCTCAGCTGGTTTTCTAGGCTAATGTCCTGCCACCTCCTTCTCTTGTCCCCAGGAAGGAAGTGTAATGATACAGGTGCGGACTGTGTCGGGCGGATTCAGATTCACAAGTCATTTATTTCCCGAACCCTGAGTTCCTCCTCTGGGCGATAGGAGTTACACTAATGATCTGCAGCTGCTAAGATTGGATGGCATCAAGCATCTAAAATCCCCAGCCACACGTCAGCCTCAGCTCTACCACGTGACCATCCTCCAGCAGTAGTGAAGTGTTCCAGAGACCATAGGCTTGGGTCTGTGGGTTCATGGGTTCCGACTATTTCCTGGTTGAAACGTAGGCAACTCACTTATTCCCAGACTCAGTTTCTTAACTTTAAAATGGCTCTAACCTTGGCCTTTCAGAGATTGTTGTGGGGGTCAGGTGAGATTACATCCATGAAACCTGTGTGTCAGGGACTCGAGATAAAGGCCAGTGAATGAAAAGCACATTCTAAATCTGAACAGTCTCTTTGCACTTTGAACAACTGGGCTGTCAGCCTTCATCTTGAAAGCAGCATCTCTACTGAGACTTGATCCCAGGACATCATGCCTGAGCTGGCCATTCTGTCCTTACTAAGGCAAGGGTCATGGGGGCCAATGGAGTCCTCTCTCATTCTGTGCCAAACAAACAAACAAAACAAAACCCCTAGACTTACTGGGTATCTTATTGGATATCTCTCTTTTCACTTATTTTTTTTCTTTTATTCTTTCTTTCTCTTTCCAAGATCATGTTGCCATCTAGAATAGGCTAACCTTAACCTTATAATCGTCCCACTTCAGTTGGGATCACAATTGAGTCCCACCATGCCAGCAGTGTGGAGCACCTAAGTCTTCGTAGACCTTCTCTGGTTCCACCTCCTGCTGCCTCACGTTATTCTCCTTTCAAGGATGAGTAAACAGACTCAGAAAGATGATGTCAGGCCTGCTTTAGGTTACAGTCAGCAGCAGAGCTGGATGAGGCCCCTTCTTGCTTGTGGGTTTTTGAGATGGATGAGGCCACATCCTGGCCTCATATTGCCCTAAGCTGTTGGTACTTCCCAGATATTTCTGCAAATTTGGCAGAAGGAATGTGTGGTGACAGAAGAGTTTCTTGACACCAAGACCAGGGACAAGCCGATCTTCTTCAGTTTTAGCCAAGTGGCACCCTCTGGCAGATTCATTAAGTTCCTCAATCAAATGCAGCCTTTAAGTACTTGCTTAAAAAAAAAAGGCCACAGCGAGCCCCCTTTATGTCGCCCTGGAGGGATTACTTGGAATTCCCCAGAGAGACTGCTACATTGGCAAATAGAGTCATTGGAAAGGCTGACTAAGACTGGATTGTTCTCGCTTTGATGGTAGCAGGAGGGGTGGGGGAAGACCACCTGCAGAGTGCCCAGAAGCTATTGGGACACAGGGGACATCTCCAGGCTTGACCCTGTGCCTTTGGTCTGATCACTTGCCTCCAGGATGTCTGAGTGCCTTATCTCACAGACTATGCCCTCTGACAACACCCAAAAGCTCCCCCCCTTTTTTTTTCACATTTTTATTGCCCTTCCGAGTTCCTGTGGACTCTGCTCATTTGTTTCTGCAGCCAGTTGGTTTTGTTTCATTCTTTATATTTTTAGATTTCTTTTCCCTCTCATCCCCTTTGCTGTTTTGTTTGGGTCTCTGACATGTCCATCTCCTTGGACAAATGCAGCGATAAGAATAATATTAAGAATTATGAATGCCCCCCTATACCTTCCTGTATTTTGTAGTCTCCACTTGACTGTTTTGCATAATGGAGAAGACATCTGCTCACACAGCTCAGCCCTCTCTCTATTCTTGGATGATTCTAATCACATTTAATGATGGTGTGTACTCCATGATATGGAACTGGAATTGATCTCCCTATATGCATTTTCTGCTTCTCCTGGTTTGGGTCTTTGGATCTGCAGGAATAAACATAGTCTCTCACCCATTGGCCTGTTCTCTATATATTAGAGAGAATTAAAACATCTTTATCCTTTCTTCTTAAAGTATTTCCTTCTCAGGCTAAATACACTAAGTTTTGAAAACTTCGAGGGGTATGCTGCATAGTGCAAACTGACTCAAATTTATAATCCTCCTGCCTCAGCTTCCTGCATGCTGGGATTATAGGTATGCACCACACCAGCTAGCATGAGCTGCTCTGTGAACATTAAAGTTCCCACCACAGAGTTTGTTTACCATGATTTCCCCCACTCACTTCAGCGTTTTTAATGTCATTTCCAAAGTATGAATCCCAAAGTTTGACATGGTAATCCAGACATGTCTTGAAATACTTTGTATTTAATCCTACTGAAATTGAATCTCCTAAAAGTCTTCAAAAATGTTAAAATTACATTTATTGAATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAGAGAGAGAGAGAGAGAGAGAGAGAGCACCACAGTACACATGTGGAGGTCAGAGGACAACTTTGGGGAATCAGTTCTCTCCTACCTTTTGAGTCCTGTGGATATCAAACTCAGGTTTGGTGGCAAGCACCTTTACTCACTGAACCATCTTCCCAGCGCTTAATTCTTTAATGTCTTCTTAATTGACATGTCCATTTAAGCCACACTTGTCAGACCACCACTTAAGTTTTTCCCCCCAGTTATTTTGTCATGTGGAGATCAGATAGTCATGTTTCCACTGATACTGATACTCATTTGAGTCTGGGTAACATTGTGCTTCAGAACGGAGCAAGGGCACATGACTGGAGAGATATTTAAGGAAACACCGCGTGGGTGACCACAATCCACATCCCAACACTGATGGGAGGAACCGTGAGGTGCCTTCCCACCTGACTGGCTGAAATCCCCACCCAGCCATCCCTAGGCTTCCGCAGAAGGACATCTCCTGCTGCCTTGGCCTGGCTTTCTCTCCTCAAGTCTTCTCTGAAGGTCTCAGTGACTGCTTATAGACCACCTGTTTAAACAATTACAGAACCAATCTACTTCTTGAATTTTAAGACAAATTTGGTTTGTGTCCAGCCTTTGGTCACCAAACTATTACCTCAGAATCTCCTAGGGAATATTGTAGATGGTCTCCTAACAGCACACATAGCTTCAAAGATCTGTGGAATGATTGGAAGTCAGTCATTTGGGCAGAAGTATCAGCCCTGTTGGAATTTTAACCTTCAAGGATTAGTCTCTAGAAGATAAGGAAAACCAGAGGGTTAAATGATCAAACTGCACACATCACTTCTGTGGTTCAAGCTTCTCTCTTCTCTCTAGTTATTTTTGCCTCCCCAGTTATACAACATCAGTCTGAAATAGGTGTTTTGAACCTGTCAAGCTCACTGTGGCCAGACATTCTAAAAATAGAAAACTATTATTGAATCTTATATTTTTTCTGAATCCTTAAGATATCTTCAAAATCCCCAGTAACTTCTCCAAAAATCCCCATTCTTGAAAATTGCCATGTCAAATTATTTTTCTTCCATGAATACACGTATATGATATATACGGATATGTATCAATTCTTTTCTGTTACTGGAGTATTTGTGAGTTGTCTGCAAATGCCCAGGCATCGTGTTCCTAATTATTTCAACAAGTGCTTTCCAAGCATAAGAGGGGTAAACACAGAGAAACATAGCAGCCCCACCCCCACCCCAAGGAAAATTTCCAGTTGAGCTGTGTCCTATTAAGGTGGTACAGACTAATTGTCTGGGCTTTTTGCAGTTATCTTAAGGCTGTCCCGCATGCGCAACCCCATCAGTTGACTTGAGATATAATCACGAGTCCTTTGTGGCATATCATTGTTGAATATCTCTCTTCTCCTTTAGTCTAGGGTAATGTCTTTGCCTTTTTGCGTGCGTCTCTCAGGATGTTGTTTTTGAAGAGCCTAAGCTAGTTATTCCCAGTATCCCTTTCCAACTGCTGTACACAATTGCTTCCTGATCACTATAAATAATTTTATCAGTTCTTTGTATCTAAGAGCCCAGGTATCACTGTGCCCCGTTTTCTGAGCTTTTAAACTGTGTATAGTTTAGATGGACATGCTACTGTGTTGTTTGGCAATCTCTCTGTGAGGTGGAACATTCCCCAACTCTGTAGCAGTATTATGTCAACAGTTATTTAACTTCCCGTTAACAAATTTGACCAATTAAAAGTTTTACAATTTGTTACTAGTTCTTTGAGGATTGTGTCCACATCTTAATCATATTTAACCCCTCTTCTTCCAGCTCTTCCCAGACCTACCCCTCTCCCTATCCACCCAACTTTATGTCTCTTTTCTCACCAAAACCAATTTGTACTGCCCAAATATTCTTCAGTGTGGTCTTCTACTAGAACCTGATCAGGGTTTGCACACTGAGAAAACTGACCATGATTTCCCAGCAGCTGCCAGCTGCCAATATTTCTACACCTAGGAGTGGGATTGGGTGCTCAACTCTCACTCCATTCTGGAAGTTGGTCTGGCTTGGGCTTACACGGTTCAAATGTGCAGTTGCCCTGCTGTGTCTAGAAGTCAGTATTTCCTGGTAGGTATCTACTGTCTCTGGTTCTTAGACTCTTCCTGACCTCTGCCCTTAGATTTATGTTTCATTTTGCATAGTTATCCCTGAGCAGTGGGAGGAGAGGGTACAGAATGTGCATCCTATTTAAAGATAAGAAATCTGCAATCTCTTAAAAGATTTAAACATTTCACTCTTTTCTAACTGAAACTAAACTTAAAAAGAAATCTCTGGTGCAGACACAGTGTAGATACTGACAAGTTTGTTTTAAATGATCACTTCTAATATTGGTTTACTGCACCTGTTGGTGATGTAGCAATCCATCCTCCCCAACAAAGTTCTGTTCTTTGTGAAGCAAAATGAAAGTTCTCGAAGGCAGCCACCCATGTTTCTGACATCTTCCTTAAAAATGTTTATTTGTATATCCATGGAAAATTTTTCCATGACCTGCAGAATTTTGGTCTCAGCCTCTTGTCACTTTTTCTTCCCTTTACCTTTTTATGTTTACTGTATCTTCTCCTTCTAGCACAGGGTCACTAGAGACAAATGGTACTAGGAGTGGGGTCCTCTCTCCCAAAGAGCTATCCTTAGTTCTTAACAAATGGAGATTGTTAGATGTCCATTAGTGTCTCGGGGAGGAAAGAAAGGACACTTTACACTGATTTGCATTTGTTTCCTAGATCTTGTATATTTATTTGTTTGCTTTAAATTAATTTGTTGTTTTTTGAGACAAAACATCTCAAAAAAAAAAAAAAAGGAGCCAGCTATATCCTCCTGTCTTTTGGTTACAGATTTGTGATGCCCCGCCCCGCCCAGGCCTTGCTTAGAAATTCTTAATGGAAACTTCCTATGCAGATAGCTTGGTGACTGCCACAGTTGCTAGATGTTACATAATTATAGAACACACATCACAATCACAAGCTCAGAGAACCTAAAGATTTTATATCCATGAGATACACCACACTTAACAGTTTAAATCATTCAATAACTTATACATTGGAGTCCCACTACCTTTTTACTATTTATTATTTTGGAAATGGTTTTACTATGTAGATCTGATTGTCCTGAAACTCTTTATGTAGACCAGGCTGGCTTTGAACTCACCAAGGTCAATCTGCCAGCTTCCCAAGTGCTAGGATTAAAGGTGTGCCATCATGTAACACATTCCTATTTTCTAAGCTAAAAATGTTTTTCCCAATATTTGGCCATTTTATCAACCTTGAGTAGGGAAGGAGACAAGACATGAACAAAAATTCTAAAAGAGTAAAGACAGTGCATTGTATGGATTTCTGTGTAATCTCTGAGCCAATGAAACTGCCGTTATCCTCTTCTTCCTAG
Seq C2 exon
GTCCACATCTCCACTGGCAAGGCTTCATGGGACTTCCATTTTAGAGCGACATCACCTGGAATATAGCAAGACTCTCTTGCAGGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016593:ENSRNOT00000022317:14
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=FE(14.5=100)
A:
NA
C2:
PF0023314=PDEase_I=FE(11.6=100)
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
Zebrafish
(danRer10)
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]