RnoINT0108908 @ rn6
Intron Retention
Gene
ENSRNOG00000017816 | Pde6a
Description
phosphodiesterase 6A [Source:RGD Symbol;Acc:1306835]
Coordinates
chr18:56560990-56565168:+
Coord C1 exon
chr18:56560990-56561130
Coord A exon
chr18:56561131-56565093
Coord C2 exon
chr18:56565094-56565168
Length
3963 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
TTTTTTTTTTTAACCCCTAGGAA
3' ss Score
11.84
Exon sequences
Seq C1 exon
ATATTGCTGTGGTCTGGAAGCAAGGTCTTCGAAGAGCTCACGGATATAGAGAGGCAGTTCCACAAGGCCCTGTATACGGTCCGAGCTTTTCTCAACTGTGACAGATACTCTGTAGGACTCTTAGACATGACCAAACAGAAG
Seq A exon
GTAAGAAAACTTCAAGGATAGGGCCTTTCTACGGAACACGTGGTGACCGAATGCAGTCTGGTCAATAATTCAACTAGCTCAGGACACAGTCTGGGTGAATTTGGATGGCTGTGAAGGGTTTTACCTAATGGGCAGGGAGATAACTGAGTCAGGAACATGCTTGCCTTGAAGCCACGAAGACCTGAGTTTACCCCTAGAACTGATATTAAAGGCAAGTGCCAGACATAGCACAGGTGTAGAGGTCAGAGGACAACTTTTGGAAGTCAGTTCTCTCCTTCCACTATGGGTTCTGGGGATTGAATTCAGGTCATTGGGGTCACACGGGCAAGTGATTTTACCCAAGTCTGAATCCAGGTCCTCTGCTGTGTCATAAACATCTCCGAGTCCAAGCTTTCTTTCTTTCTTTCTTTTTTTTTTTTTTTTTTCCGGAGCTGGGGACCGAACCCAGGACCTTGCGCTTCCTAGGCAAGTGCTCTACCACTGAGCTAAATCCCCAGCCCCCAAGCCTTCTTTATCTTAGAAGTGTGTTTGGAGCATGGCGGTGCACACCTTTAATTCCAGCACTCTGGAGGTAGAGGCAAGTGGATCTCTGTGAGTTCAAGGACAGCCTGCCTGGTCTACAGAGAGCGTACCAGGACAGGCAGGGCTACACAAAGAAACCCTGTCTCAACCTCTCCCCGGCAGGGCAGAAGTGTGCTTTGGTGAATAGAAATCCGAGTCATGTAAGAAATCAGTTTTTCTTATGGCTGCTGACTTCTGTGCCCTAAGAAAAAATCTTTTCTAGCCTCTAGGGTCAGAAAAATACTTTACTTATGCCAATTCATGTTAAGTTTTATTTTTGTGGATTTTACATGTAGCTCTAGACAGTGTAACAAAAACTCTCATTTATAGCATGATGCAAGATAAATATTACTACTCCACATGGACAACCAACGAACCGATTATCTCATCTGAAAAAGACTGATCCTTCCCCATTGCCCTATTGAAAGATCCACCTTTTCTTACTGTCCCACTAAAAAGCCTGTCTTTCCTTGTGCTGGTTTCTGGAATCTCTAGTTCATTGCATTGGCTTATTTCTCTCGGTTACTCTATGGCCACACTTAATTTCAGTATGTTTATATGTATCTTGGCACACACTTGAGAAAAGATCTCTGGGTTTGGTGTTTTATGTTAAGAGTTCTTCACTGTGCGTTACATTTTGTGTCCGTTCTCCCCACTCAGGGGCTTCAGCTTGAATACTTCTTCTCTTACATTTTTGGGGGTTGAAAGAGCGTACCCCTAAACAGGGAACGTGTCTCTTGCGCCAATTGTGGGATGGGGTGCCCCCAAGAACCACGAGTAGCCATTCTTGATGTATAAGCACAAGGTAGCTTTTATTAACGAGATCCCGGGTCTTAGCGGGATCCCGGGTCGACACATATCTCACACAGGAGACAGAGGAATCGACCCCGAGCTTCCAAACTCGGGGGTTTTTATAGGGGAGGTAAGGGGCATTCGCACGGTTACACATGATTGGTCAATTCAAATGGTGCACAGTTACTTTCGGCGCGAAATGACATCAGCAAGGAGTATGTGTTATCTAGCAGCTCGGCAGGCAGGTAGGGTGGCTCATCTCACTCAGGGGGGTGAAGGAAGGGGAGGGTGTCCTTGGGGAAGGAAGGATGGTCAGTGTCCTTGGGGCTGATAGCTGGTTTGGCAAGTCCTATCTCTGGCTCTCCCTCAGGCACGTCCGGCCCTGCACATCCAGACTCTGACAATGAGCAACCTTTATGAAACTCTAGTTCTGCACATTCGGGCTCTGACAATGAGTAACCTTTATGAAACTCTAGTTCTACAGTGGTGAGCCTAGCCTTTAATGGCTGAGCCATCTCTCCAGCCCTGAGTATTTCTTCTCATGCTGGGCAGTAACGAAGTTCTTGCTTACCTTCTTCATGAAACATTAAGTTCTAGGGCAGCGGTTCTCAACCTTCCTAACGCTGTGACCCTTTAATACAGTTTCTCAGGCCGTGTTGAGCCCCGTCCCAAGCATAAAATTATTTTGTGGCTACTTCATAACTGTAATTTTCCTACTGCACTAAATCATAATGTAAATATCTTTTTGAGACAGAGGGTTGCCAAAGGGGTCAACGACCCACAGGTTGAGAAACGCTGTTGTAGGGCCTGTGCGGTATTATGTGCACCATAAACATGTAGCAAACAGAACATGTGGCTCCGCTAGGTCCCCAGTTCACATTCCCACCCAGAACGGCATCTCCTTTCTATTGTCAGAAGTCCAGAAAAAGTTCCCAACTGGATGGAAGGCCAAGGGTGTGGAGTGTGAACTTCCTGTGAACTCCCTTCTGCTTGACCCCGGGGCAACATTAGCATAAGCAAACATCATGATAAGCATGCTCAAAGGCACAAAGGAGAGGGTGGCATCTACACACAGCAGGTCACTGTTTGTCCCTGAGTATTAACAGCTCAGTGATCAGAGGGAGCCCTGGAGGAGGAAGGCCTCCTCTGAAGGCAGAGACTTTGACCTAACACAGCTTTGCATCTCTGCAAAGAACCACCAACCAAGAAGCCACAGGCAGAAGCCTGGGTAGCCCTGGTGGCTTCTCCTCATGAGCCTCCTTTCTGGGCTCTTCCTCTCTTTCCTCTTCCTTGCTTTCTTGAGACAAGGTCTCCTGGATCCTAGGCTAGTCTTGAACTTGGTCAAAGATGAGCTTGAATGTCTGATCTTCCCGTTTCTATCCCCTAAGCACTTGGGACTCCGGGAGCCTCATCCCCATCTCTTTCTTCTGTCTTCTGCTTATGTCTTGGGCCATGGCAAAAAGAAAAACTCAAAATAAAATAAGTTTAGTTGGAATGACTCCATGAATCAGGGGGTGCCCAGACAGCAAGCCATCCAGGGCTCTGCTCTGCAGTGTGGGCAGAGAGCTGGTCTAGATGGAATAGAATAAAGCTCATGCACAACTCGATTAGCTACAGTTACACATTTGTCTGATTTAGGTGTGATCTGATCAGCTGGCTGTCTGGGATTGACTAGAATTTAATTTGTCATAAAAACATGTCTTTTAGGTTAGAGCTGGGATGGAGCCCAGAGCCTTGCACAGGCTAATCAAATGCTTTAGCTCTGCTAAACCTTGTTTTGGGGGGACATGTATTGTAGCCGTAGTACAAAGTCAGGCTGAGGTGTATCCCGTGCTTATGGCGATAAATAGCTTCTAGGGTCCTTTGAAAAGTTTTTTTTTTTCATAACACTTCACCAGGTAAAAGCAGTATTTCTGCACTTGACAGGGGGATAATGTAATGCATTTTGAGATCTCACATTTTCTCTACTGCTACTGTTTCTGATTAGCAGAGACAAAACTGCAGTATGATTGTATACCTGTAGCACCACCACCACCACCACCACCACCACCACCACCAACCCCATCATCATCATCATCATCATCATCATCATCATCATCATCATCATCATCATCATTATCATCATCTTCTTCTTCTTCTTCTTCCAGACCCTACTTCAAAAAAACTTCTTGTGTGTTCGTTGGTTGTGTGTATTTACATGTGGTTGTGTGTGTGCACGTGCCACCATGTTTAAAGTCAGAGGACATCTGCTTTGGGTGTCTGTCCCCTCCTTCCAGGTTGACTGATAGGGTCTCTTTACTGTTTGCGGTTCCATGAGACAAGCTAGCCGGCTAGACAGTATAGGGAATCCTCCTGCCTCCACCTCCTGCTTTGCACCAAGAGCATTGACATTACAGACACCGTGCTCCTGTGCCCCACTTTACCTGAAGTCTAGAATTCAAACGTGGGTCTTCACACTTGCAAAGCAAGCACTTTTACCTACTGGACCACTTCCTTATCCTCAAGCCCTCGTTTTCCCACGTCATGTTCTACAACACCAGGGCTACCCACATTTTGGCTGATTTGACAGATGTGTTTATCAATGTTTTCTTTTTTTTTTTTAACCCCTAG
Seq C2 exon
GAATTTTTTGATGTGTGGCCAGTTCTGATGGGCGAGGCCCCAGCCTACTCTGGTCCCAGGACTCCAGATGGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017816:ENSRNOT00000024171:4
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=PU(18.0=68.1)
A:
NA
C2:
PF0159021=GAF=FE(13.5=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]