RnoINT0108911 @ rn6
Intron Retention
Gene
ENSRNOG00000017816 | Pde6a
Description
phosphodiesterase 6A [Source:RGD Symbol;Acc:1306835]
Coordinates
chr18:56577344-56580595:+
Coord C1 exon
chr18:56577344-56577410
Coord A exon
chr18:56577411-56580547
Coord C2 exon
chr18:56580548-56580595
Length
3137 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
ATTCCCCTCCTGGCTTGCAGATC
3' ss Score
10.19
Exon sequences
Seq C1 exon
GAACCCACCTGCTGACCACTGGGCTCTAGTTAGCGGTCTTCCCACTTATGTGGCTCAAAATGGTCTG
Seq A exon
GTAAGTGATACATGGGGGAGGGGCAGGTTAAATCTGGGGGACTAAAGAGTTTTAATCAAGAGAATGAGGAAAGCAGGGTTAGTGTGAATCTTTCAAGCCAGAGACTTTTGTTTTTATACTTTACTCAACACCTGACCCACAAAAGACAACAGACCATTGACATGTCCAGAAATAGCAACTATAGAGAAATAGTTCTTACATGGAAAGGTGTATAGTGCCCCTGATGACAGAAACTTGTGCAAATATATCAGGGACAATGTCTGGACCAGCTGATCTCTCAGGCTCCCCAGATACTAAGAATGAGCTCTTACACCAGACGTGATTGCCATTCCTAGCCTCTCCCTCCTACCCACATACAGGGCAGAGCACCAGGGTGCTACCTGCTGCCATACCTGTGTTACTCAGACTTTTTGTTGCTATGACAAAACGCCTGGCTGGGGAACTCATATAACCTTCAAAGTCACACTCCCAGTGACCTATTTCCTCCAGCTAGGCCCCAAAATAACCCCACCCAGCTGGGGACCAAGCTGTCAACCCAGAAGCCTGTATGGGATTTCCCCCCATATTTAGACCAAAACAATGTTCCACCCACTCAGCGTCGGAGAGTAGAGTGATGGTCTCCTGTGTTCCAGAGCAGGGTCGTGTCTGCTAATTACACATCACCCCATGTACTATTTTAGCCTGTGGCAAAACATCACTGGCCTGTGGTAAATCAGTGGCCAGGAAGCCAAAAGGAGACAGGAAAATGAGGTGTGGCTTCCAATATTCTGTCAATGACATGATCCAATAAGTGGAAAAGTACCTGCTAGGCCCGCTCACCTCTTAAAAGTTTCTATGACTTCCCTCACTGGTGAGCAAGAGTCTCATTTTACCCACGAGACTTTGGGGACCCTCCATCTCCAGACTCTATGACTTGCAGAGCTGGGTACAGAGGTCAGGAGCAACATGCTGTATGTGCTTAGCATTGCGGAGGTGTTAGGGCTGAGACAAGGTGGCTCAAGGGGGAGGAAGGAGCCAGATCTAGTGGACCTTGAATGCCAAAGGCTGGCACTTGAATCCGAAGCTCCCTGGAGGCAAACTGAGAAGGGCACAGGTCAAGTAAGAGCTGATAAGAATCTCAGAGTTGGGCAGGGGATGGATGTTCATGCAGGTGATAGAGTGCTTGCCAATACTCATGAAGGCCTGTTCTTCATTAATCCGGGTGTGGTGGCCCACTTCTGAAATCCTAGAATCCAAGAAGTGGAGGCAAAAGGACCAGAAGTTCAAGGTTATCCTTAGGCACATAGTAAGTTAGAGTCCAGCCTGAGTTAAATGAGACTCTCAAACAAACAACAAACAAGCAAACCCCAATCTCAAGGAAGGCCGACAGACACTGTCACTAGGTACCGACAATAATGAGGACCCAGACATATGTGTTCATTTAATACAACTTCAGCAGAAACAAGATGAAGAGGAGATACAGGGTCAGATCTCATACTGAGAAGGCAAAGCCAGCAGGAGTTGGTGACTAAGCCAGAGGGGAGAGGAGAGAGATGTGAAAGCTGATCTCCAGCTTCTGGACCTGTTGAACACCACAGCTGTTGACCTGGGATACCTAGTGATGAGTCACCCACACTCAACAACAAGTCGAGACATTTCTCTGGGGCATGTCCAGCAGGGGGATGAAGAGACTGTTTTTATACCATGGGGTACAGAGATAGAGATCGAGAGTCTCAGGATCAGGCAGCACCGGAAACCACAGGTGCAGATGAAAGCTCCAAGGGAGAGCTCACCTGATGCAATGCTGGGAGATGTTGGGGTTTCCAGAGCTGGTGGAGGAAGAGGGTTCTGGGAAGGACAAACAGGAGAGGTCAAAACTGTTTGGAGACCTAGGAGAAGCAGGGCCATGGTCACCAAGGAAGCATGTGAGAGGCCACATGTATATAGCACTATGTAGCACAGGGATCTGGTGAGGAAGAAGCAGGAATCCCACCATAGCATAAGGCCCTTGGCAGACCCATTAAAAACAGATTTGGTAGTGAAGTGGAGGCAAAGCCAGCAAGAAGGCAACTGAGGAATGGTGGTCAGTGAGCAGGTAGGGAGTGTATGATAAAGGAGGAGAATGTTTGCCTGGATGGTTGCTATGGTAGCTATGTCAGCTAGAAGAAGATTAGCAAGGTTGTAGGAGAGATTGGAGCATGCTCCTGGACTGAGAGCAACAGTGAGGAAAGAGCAAGGGTATCTGATGGACAGTGCTTAGAAAGGACATGTCCAGTTCCCAATCTGAGACTAGGCAGCTCAAGACAATCAAGACTTGAGACTATGCTCAAGTAGGGCTGTTGCCAGCCCATGTGGGAATGTTTTGAGAGCAGAAAGAAGAAATCCCTTCACAGTTGGATTTCAGCACTCAATCAGATGTCTTTGTGCAGCATACACACTACACAGCCACATATAGTGGCCCCATTGCCAGTATTCCAGAGGGGGGATCATATTGATCTTGTCTTCAACAAAGGAATCTAGCAATATAGAGGCAGAGTTGAAATACTTTTTGTTTCTTAATCAAATTTACAGCCCAAGGAAAGGATAACAAATGAACAGAACTCTAATGTAACTGAGCCAGAGATATTTAAAGGTGCCTCTTGTAATGTTAGCCCGTAGGAGGCAGAAGCAGACTCCAAATTCCAAGCCAGCCAGGGCTATTGTAACACACACACACACACACACACACACACACACACACACACACACACACGCACACGCACACGCACACGCACACGCACACGCACATGTGTGCATGCACACTGACATATGTATGCACTCACACACATGTGCACAACCTTACACATGTACCCAAATATCCAAATACTTAGCATAAGAGCCACAGAATGGAATACTATTCAGTTATTGATAACGACAGCAGGACCCTTAGCTTTTCCAAACCTAGAAATGTCTAGGATGTAACAAAAAGAAATAAAATCTACCAGGTGACCTTTCCTAGCTGGTAACCTCAGTTAATAACCCTGAGCCATTTTGAATCTGTCCACCTGATGAGGACAGTGCACTGCCTTGGGCGAGGACTTGGGTTCAGAATAGGGAGCAGGGCTTGCAGGCACTTGCTCAGCTCTGACCAGTTGCATTATTCCCCTCCTGGCTTGCAG
Seq C2 exon
ATCTGCAATATAATGAATGCGCCTGCAGAGGACTTTTTTGAATTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017816:ENSRNOT00000024171:7
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:
PF0159021=GAF=FE(12.4=100)
A:
NA
C2:
PF0159021=GAF=FE(8.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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]