RnoINT0108933 @ rn6
Intron Retention
Gene
ENSRNOG00000000065 | Pde6b
Description
phosphodiesterase 6B [Source:RGD Symbol;Acc:1311039]
Coordinates
chr14:2337431-2338999:-
Coord C1 exon
chr14:2338952-2338999
Coord A exon
chr14:2337581-2338951
Coord C2 exon
chr14:2337431-2337580
Length
1371 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATC
5' ss Score
6.99
3' ss Seq
TCTTTCTCTATTTCCTGCAGGAA
3' ss Score
12.03
Exon sequences
Seq C1 exon
ATCTGTAACATCATGAACGCTTCAGCTGATGAAATGTTCAACTTTCAG
Seq A exon
GTAATCTGCCTACTCACTTAATGAAACTGCATCTTACTAGAAAAAGAGGATATTTTGTTTCAGAAATGATGGGTCGAATTAGGTTTTTCCACTTAAAACGACTCTGGGGGTGGGTTCTAGAGAGATAGCTCAGCAGGTAAATTGTTTTCTGTGAAAGCACGAGGAGCCAGCACCCACATAAGTAAAACCCAGGCGCGTGTACCTGTAATCCAAGTGTTAGGTGAGGAGATCTAACCAATCAGTGAGCTCCAGTATCAGTTAGAAATCCTATCTCAGAAAATAAAGTGGCAAGCAACAGAGGAAAACACTTAATATGCACACATATAGGTACACCAACGTATGTAGCATACACACATGAAACAACTTCACTTACACCTCTAATCCAGCACTCACTCAAAAGACTGAGGCAGCAAGATTGCTGCAATCAGCCCAAGGCCAACATGGCTGAAGAGTCAGATTCTGTCTCAAAAAGCAAGAGAAAAATAGAAGAAACAATTTCAGTCTTAGAGACTGGGAAGCCATACAAGAAATGCGTTTGTATTTCCAGGTCTACAGTCGAGCTGATTTTATGTGGGCTCAGTTAGATTTAATTGATCATGGCTGGACTCAGGTGATCTTGTCTAGTCTCAGCTGACCTTGTCTGATCTCAACTGATCTTGGCTGGACTCAGGAGAGCTAATCTGGGCTTAGTGGATCCTGTCTGGTCTCAGGTGATCTTGGCTGGTCTTCACTGGGTTCATCTGGGTTCAGTTGGTCTTCACTGTATTCAGCAGAAGTCAGCTAATCTTTGGACTCAATAAACTTTTGTAGGACTCAGCAGAACTTTATTTGATATCACTTGATTGAACTTGGTAGAGTTGAGCTTTTCTGCGCTGGAACTATGAAGGTTTAGAGTTTTTCTGCTCTACATGTCTTTACCTGGTGTTTGGACAAACATTCCTATGGCCACATAGCACTTTCCTAAGGAAGGTTATATTAGTGGGAAAACATCACTAATGGCCTCTTGGAGGAACTGGAAGACAGAGTGAACCAACTACAGAGTGTTCAAAGTACAGTGTAAAGTAGAAATGTGGATCCATTTGTTGAGCAGATCGTAAGTTTTCAATTCTTCTAATAAGTGTTCTTGGGGACCGGAGCCCTCAGATGCCCATGAAGTCTGCTATACTGGGAAAATAGCCTCCTCCAGCCCACAAAATTATGACACAAAGCCCACGAACATAAAGTTTACAGACAAGTGAAAATGAAGAGTCGGCATTCAACCTATTAGCATGGCCCGAGAACAGAAAATATGAGGTCTAACCCTTCCCCTAGTCACCAAGTCATTACCCGACCACACCTGGAACAGCCTAGTTCTTTCTCTATTTCCTGCAG
Seq C2 exon
GAAGGGCCCCTGGATGAGTCAGGGTGGGTGATCAAGAATGTTCTCTCCATGCCCATTGTCAACAAGAAGGAGGAGATTGTGGGGGTAGCCACCTTCTACAACAGGAAAGATGGAAAGCCCTTCGATGATCAAGATGAAGTCCTTATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000065:ENSRNOT00000000077:8
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=0.020
Domain overlap (PFAM):
C1:
PF0159021=GAF=FE(8.4=100)
A:
NA
C2:
PF0159021=GAF=FE(27.5=100)
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:
ATCTGTAACATCATGAACGCTTCA
R:
CTCCATAAGGACTTCATCTTGATCA
Band lengths:
198-1569
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]