RnoINT0108926 @ rn6
Intron Retention
Gene
ENSRNOG00000000065 | Pde6b
Description
phosphodiesterase 6B [Source:RGD Symbol;Acc:1311039]
Coordinates
chr14:2329612-2331129:-
Coord C1 exon
chr14:2331046-2331129
Coord A exon
chr14:2329769-2331045
Coord C2 exon
chr14:2329612-2329768
Length
1277 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCGT
5' ss Score
9.49
3' ss Seq
GACTTCTCAGTTCCCTCTAGGAA
3' ss Score
4.93
Exon sequences
Seq C1 exon
CCCATGATGGACCGGAACAAAGCAGCTGAGCTCCCCAAGCTACAAGTTGGCTTCATCGACTTCGTATGTACTTTCGTGTACAAG
Seq A exon
GTGCGTAGCAGGGGTATTCTACATTGGCTGGGGTAGACTGGCTAAGGGTGGGTAGGGAATGGGCTGGATCCAACAGGGACCCAACAGGGACATTTGTGAGGTGTCCACCCTTATCTGATAGATGAGGGAAACCGCAACACCCATCTTAACCTGCCCAAGCAATGGTTTGTCCCCAAACTTATGACCGTCCCTCAGAATCACCAAGTATATTCCCTAAAATGTCCTTATGCACCCTGAGGTCTCACCTTAAATATCCCTGCCTCGGAGTACCCCTTTACCCACAGCAGGCACAACTTCTTCAGGAAAGTGGCCACAACTTTCCTAGGTATCTGTGAAAATGTGACTCAAGCCTGAGTCTTAGCTGTCTCCGATGGAATACCCCAATACAACCTGAAGAACATGTTAGCAGCCATGTTCCCACTAGCTGGCCAGGCACCAAAGAACTGCCAAGTCTTTGAGTTCTGCTATTTGATCATAGAATATAAGACAAGAACTTGAAGAGACTCACAAGACAGGCCTGACTACAGTATCCTCATGTGATATACATGACACCCAAGGTCCACATCATTGAGTTGTACTCAGTGGTGACAGACCCACATTGAAAAGTAGATGCTGTGTGGTTTCAAGCGACATCAATCGTATGCAGTTGGGGAAGCAGGAAGAGATGACCACTGTGGGCCCCATTGTCCCTCTGCTCATTGACATCATCTGAAAGCAGTTGTAGAGTTTGTTGGAGTTTCCAATCCTCCAGCAGGTGACATTCTCTGCTCTATTCTTGGGATGGTCATCCTGTTAATGCTATATCATAAATCCATCTCACAAGTTACTATGCTGTCCTCCTCCTTAGGGATGTTCTGGAAAGGAGACACCTCAGAGGTTCTCTCCTATGGGGTTAACTATAGATGACATTGTCTGGAGCGAGCCCCAAGTAAAGTAAGATAAGGGTCAGGAAACCAAGCTCATGCTAGGCCTGCAGTGTGGAGTCTTAGATTATATGACCTAGAGATCAATCTTTGCAGTCCAGTGACCAGTGCTAAGAGTGGTCATTGTATATGCAGTATCAGGGAGTCTGAAGCCTCATTTCACCGTCCTTATGACTTTTAAGATAAACAGGCCACAGATACCAGAATCCTATAAGCAAAATATATAGCTCCATGATTACAGAGCATTCTCAGTCCAGTGAGTTCGGTGGTAGGGAAGCCTGAGTCCTTGAAGAGCTACCATTTGAGCCCTGCAAGATCCGTGAAACAGCATGGTGACTTCTCAGTTCCCTCTAG
Seq C2 exon
GAATTTTCTCGATTTCACGAAGAGATCCTGCCCATGTTTGACCGACTGCAAAATAACAGAAAGGAGTGGAAAGCTCTAGCTGATGAGTATGAGGCCAAAGTCAAGGCACTGGAGGAAGAGAAGAAGAAGGAAGAAGACAGAGTAGCAGCCAAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000065:ENSRNOT00000000077:20
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=0.038
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=FE(10.8=100)
A:
NA
C2:
PF0023314=PDEase_I=PD(7.6=35.8)
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:
CCCATGATGGACCGGAACAAA
R:
TCTTGGCTGCTACTCTGTCTTCT
Band lengths:
238-1515
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]