RnoINT0108917 @ rn6
Intron Retention
Gene
ENSRNOG00000000065 | Pde6b
Description
phosphodiesterase 6B [Source:RGD Symbol;Acc:1311039]
Coordinates
chr14:2333677-2335429:-
Coord C1 exon
chr14:2335283-2335429
Coord A exon
chr14:2333785-2335282
Coord C2 exon
chr14:2333677-2333784
Length
1498 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
ACGTGTCCTCTGCTCCCCAGGTC
3' ss Score
10.11
Exon sequences
Seq C1 exon
AAGGAGGAACTTCCAGGGCCTACCAAGTTTGACATCTATGAGTTCCACTTCTCTGATCTGGAGTGCACCGAGCTGGAGCTAGTCAAATGTGGCATCCAGATGTACTACGAGCTGGGTGTAGTCCGAAAGTTCCAGATTCCCCAGGAG
Seq A exon
GTGAGGAGATATGGTTGGAAGTTCCAGAACAAGAGGACATGGAGGAATGGTTAAGGGTTCAGGTCCCCTAAGAGGCGAAATGTGTATGGTAATAGGGGGAGTGTGTCCATGAGTCCCACAGAGAGTGTTGGTGACAAACATGTCTATCACAGTGAAATACATAATTGGATGGACCATGGATGGATAGACGGATGGAAATTTTGTTAACTAGGTGTTCCAAACAACATTTTTATTAGGACATCACAGGGAAATAGGGATCTTTAGGAATTGCAGCAACTGCTCACCAGAATAGAAAACACACAGCATCTTATAGGCTTGCTTATAGGAGAGCCCCTCAGGGATCAACACCAGGAGGAAGGGAAGAGCTCAGAGCCCCACCATCCTGCTCTCTCCATGGCTTCCTCACTCTGTCCTGCATCCACCTCCATACCTGTGTTCCCACAGCCCACATGAAGAATCTCTCATGCTCCTCAGAAAACAGGAGCAACAGGCTGGTATTTCTGAAAGGAATTTTACTAAATACTGAGGGAAACAGACAGACAAAAACATTGGAATAAAAAATATTGGGGTTGGGGATTTAGCTCAGTAGTAGAGCACTTGCCTAGCAAGCACAAGGCCCTGGGTTTGGTCCCCAGCTCCGAAAAAAAAAAAAAAAAAAAAAAAGAACCAAAAAATATTACCAAAGCAGCTAGTGTTCTTAACCACTGAGCCATCCCTCCAGGCCCAGCCCTTCTTCACTTTAATGCAGTAACTTCAAACTACTTAAGTCATAGTACACAAATCTTTTAGTGGTATAGTAAGGTAAAATTGTTTAAAACTATTAAATTAATCATATTTAAAGTTATAAATCAAAACTATGCCCATAAGAAATTTTTATCTTGCTGGGCATAGTGGTGCTTGAGAGGCAGAGGCAGGCAGATCTGTGAGTTCTAGACCAGCCAAGTCTGCATAGTAAGTTCCAGAACTGCCAGGGCTATGTAGAAAGATGCTGCCTCAACAAAACCAAACAAAAAAAATCCAAATAATTACTTGACCCTAAATATCATAACGAAAGAAGTGAAGGGCTCCCTCAGCCTGCATCGTCTTGTTGAAGAAAATGTTGAGGTGTCCCACCTTCCTGCTCGCAGGCCACATGTGTGACCCACTCAAACATTCAGGCCTTAAAATGATGGGATTTTTTGTTTGTTTGGTTGTTCAGTTGGTTTGGACTTTGCTTTTCTCAAAAGATCTCACATGCCAGGGTCCTCTTCCCATTATGAGTCTGAACCACGGGGAGAGAGGCATCAAATTTCCAATGTCTGGAATGTGAGAACCCTTCCCAGACAGGAAGGGGCCAACGGGAACAAGGAACAAGGGCTCTGAGGCCAACAAGACAGAAGCAGGGAAATAGGTATAGCAGACTCTACTGCAAGCACAGGAGAGGCTTGTGTGGACTCTCATGTGGTATTGTGTAGACTCACGTGTGGATCCCAGAGCCCACGTGTCCTCTGCTCCCCAG
Seq C2 exon
GTCCTTGTGCGCTTCCTATTCTCTGTCAGCAAAGCTTACCGAAGAATCACCTACCATAACTGGCGCCATGGCTTCAATGTGGCCCAGACCATGTTTACCCTACTCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000065:ENSRNOT00000000077:12
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:
NO
A:
NA
C2:
PF0023314=PDEase_I=PU(7.2=50.0)
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:
AGGAGGAACTTCCAGGGCCTA
R:
CATGAGTAGGGTAAACATGGTCTGG
Band lengths:
254-1752
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]