RnoINT0108905 @ rn6
Intron Retention
Gene
ENSRNOG00000017816 | Pde6a
Description
phosphodiesterase 6A [Source:RGD Symbol;Acc:1306835]
Coordinates
chr18:56613162-56616627:+
Coord C1 exon
chr18:56613162-56613309
Coord A exon
chr18:56613310-56615960
Coord C2 exon
chr18:56615961-56616627
Length
2651 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGC
5' ss Score
10.08
3' ss Seq
TGCTTTCCTGCCCTTCACAGCTG
3' ss Score
10.27
Exon sequences
Seq C1 exon
GAATTCTCCCGGTTTCATGAGGAGATCACACCCATGTTGGATGGGATCACTAACAACCGTAAGGAGTGGAAGGCGCTGGCTGATGAGTACGAGGCCAGGATGAAAGCATTGGAGGAGGAGAAGCAGAAGCAGCAGGCAGCCAAGCAAG
Seq A exon
GTAGGCAGAAGAGGCAAGGTGGAGTCTTGGCCAGGCACTTTGAGTATGCAGTGCATCTGGGCTTGGACTGTGGTTTCCTTTCTGTGTGGGAGGGCACTGGGCCTGCTGGAGAAGAAGTGCTGTGGCCAAGCCACACAGTCAGTATGGGGCAGAGTCTGGTCCCTAGATAGAGACAGAGGGATGCTCTAGGGTCCTGCAGTTGAACATCAGGACGACTCTGATTCTAAGGCTGCAGATGTTTGTGCCAGCAGTTATTACTTGGAAGGAATTTTAAAGGCTGACTTTCCAGCTGTTTGACTACTTGAAACCTAGCCATCATGAGGTTTGGTTTGTACACGACCAGTGAGAGAAGGCTAACTGTCTTTAGCATCACCCATGTTAAGTGTATGGTTGGAAAGGTCTCCCTTGAACTCAAAGTGCATTTGACCTGTAAAACTATTAGTGGCGACTTCAGAACCACCCCACACTGCCCAGGGCTGAACTGCAGGGGGCCCCATTCATGTGTAGAGGCCAAGGAGATGGCCCAGGTCAGATCTCCAGAACACACATAAAGTCAGATGAGAGAGAGAGACAGAGAGACAGAGACAGAGACACAGAGAGATAGACACAGAGAGACAGAGACACAGAGACACAGAGAGAGACAGAGACAGAAACAGAGATACAGAGAGAGAGACAGAGACACAGTGAGAGGCAGAGACAGAAACAGATACAGAGAGAGAGAGAGAGGAGACAGAGACACAGAGAGAGGCAGAGAGAGAGACAGACACAGAGACACAGAGACACAGAGAGAGGCAGAGACAGAAACAGAGATACAGAGAGAGAGACAGAGACACAGAGAGAGGCAGAGACAGAAACAGATACAGAGAGAGAGAGAGAGGAGACAGAGACACAGAGAGAGGCAGAGAGAGAGACAGACACAGAGACACCGAGACACAGAGAGAGCCAGAGACAGAAACAGAGATACAGAGAGAGAGACAGACACAGAGAGACAGAGACACAGAGACACAGAGAGAGGCAGAGACAGAAGCAGAGATACAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGATCGATCACAGGTCAGCTAGCCTCAAATAATAAGAGACCCTGTTTGAAATATGGTGAGGTCTGACATCCAAATGTATCTTTTGACCTTCTTCTACATGTGAACCATGCCATGCAACATCCAAACTCAAACATATGAACGTGCACCCACCCCCTCCCCTCTACACGCTCACACATAACCAGGTACACAGGGGAGTTGTGGGAAGTTAAGCACGGGAGACATGCTTGCAATCCCAGCACTCAGGAGACTCTAAGATAGGAAAATTACTTTGAATTTTAACCTTCTCTTAAATCATAGCAAAACAAGCAAACGAAAAGGGGCAGAGTTAGCAAGACGGCTCGGCTCACAGAAGTGCTTGCTGTGCAAATCTGATGGCCCGAGTCCAATCCCGGAGCTCATAAAAAGGCAGATAGAGCACCACAGATCTGCACCTTCAGTATTTCTACACCAGGGTGGGGGTGGCTCAGAGTCCTGGGGGTACACAGAGTGGCAGAAACAAGAGACTTTTCCTCAGTAGGTGGGAGGGGAGGACTGATTCTCAAAAGTGGTCCTCTGACTTCCACATGTGCTGTGGCACGTGTGCCGCCCCACCTAATAAATGTAGTCAGACAGAGGGAGAGACGGAGACAGATTGACTAAGGCTTTGTACAGGAAGAGAAGTTGGTCGGGGTAGAGCAGAGACTAGAAGCCAAGACTTCAAAGAACCAGGGCACACAACTGATCCTAGCTTCAAATGGAATTTGTCCCGGCTCCCGTCACATGGCATCATTCCACACAATCGCCCCCGCCCTCCCCCAGTTATCTCCTTATCTAGCTATGTGTTCTAGACTTGGCTTCTTGTCCCTGCCAGAGGCTGCCTGACTTCCCAAGCATGTGTCCCTCTGTTCTCAGCATAGACACTGTCTGGTCCCCAGTTCTTGCATGGGCAGGCTGGGGTTATTTTCAAAGAGCAGCTTTGAAGATGGGGATACCCTTGCTATCTCCCCAGGGTCTCTTATACATCGCTGCTCCCTCCCACCCCCTCATCCCCGTGGACTTAGCGAATAAGCTGCCTTTGGGAAAAGGAGCAGGTTTGTGTAAACATAAGCCCTACCGTTTCCGTTTTAAAATAGCAGTGTTGAGAGTTGAACCCAGGCCTAGTTAAATACTAAACAAATGCTCTGTCCCTGAGCTGTCTGTCTAGCTCAGGAGCTTTCCCTTAAAATGTGCATTTGCCGTCCAGTTTAAAGTTGGGATACTCCAGTTCTAACAAACAAACAAGAAGAGATTTTTTAGCTCTTCTTTTTGAAAGATCAAGATCTGGGCACACCAGTAGACTGGATAAAAGTGTCTGGAGCTAAATGGGAACCACCCCCTTGGAGTCCTCACCCCAGTCAGTCCCTACTGTTCCCCGTGTCTCACAGGTGTTGGTTGACATTAGTCACTGTGCTGCTTCTCAGTGGGGAAGATCCTCTGGTTCCCCTGCTTCTCCTGACTGCCTATCTGCTCTCTGCACATGCCAAGCCTTGAACTTGCTCCAAAAAGGAGTCAAAGGCAGGTTTGCTGCAGCCTCCTCTGAACTGCTGTGTGCTTTCCTGCCCTTCACAG
Seq C2 exon
CTGCTTCCGGGAACCAGCCAGGAGGGAACCCCAGTCCAGGGGGTGCACCTGCATCCAAGTCCTGTTGCATCCAGTAGCTGAGCACACTGCCAGCAGGGGGCACGGCGCTCAGGAAGGAAGAGGTCACGAAGGCCACTAGACAGTTAAAGACTCAGGAGTTGAGAGGTGGCGGCAGACACAGCAGGCATCTATATCATCAAATGGTCTTAGACGTTGTTTCTGCTTTGTTTTGTTTTGTTTTGCTTTGTTTTAGACAGCTCTGTCTGGCCTGAAACTCTCTATGTAGCCGGTGTTGGCCTTGAACTCACAGACATCCACCTGCCTCTGTGTTCTGAGTGCTGGGACCACACATGCACCCCCACATAGGTCTTAGAGATTGTTTTTAATCTTAAAAAGTCCATTGAATTTAGCCCAATTTTCTATACCGACTTGATAATTTTTTTGTTCTTATGATGCTTGTGATTCTTATAAGCTCTTTAAACTTAGTGTTTTATTATAAAAGTGTTTGCTAATCTCCAAAAGTAGAGAATTATACATCAAATACCCACAAACTTACCCCAGATTTGAACATCAAACTCTGATCATGTGTGCTTCTCGTGTCTTCATGTTCCTTTTCAATTTCTCTCCCTCTCCTCCTTTATCTCTCCCTCCCTCCCTCCCTCCCTTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017816:ENSRNOT00000024171:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.320 A=NA C2=0.840
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=PD(7.6=38.0)
A:
NA
C2:
NO
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:
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]