RnoINT0108895 @ rn6
Intron Retention
Gene
ENSRNOG00000017816 | Pde6a
Description
phosphodiesterase 6A [Source:RGD Symbol;Acc:1306835]
Coordinates
chr18:56585621-56586793:+
Coord C1 exon
chr18:56585621-56585767
Coord A exon
chr18:56585768-56586685
Coord C2 exon
chr18:56586686-56586793
Length
918 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
ACTGACGTGTGTGTTCCCAGGCC
3' ss Score
8.73
Exon sequences
Seq C1 exon
CAAGAAGAACTTCCAGATGCCGAGAAATATGAAATCAACAAGTTTCACTTCAGTGACCTGCCCCTTACGGAACTGGAGCTGGTGAAATGCGGCATACAGATGTACTATGAGCTCAGAGTGGTGGACAAGTTCCACATCCCGCAAGAG
Seq A exon
GTGAGGCCCAGGGCTGCTCCCCTTCCCTCCCTCTGCAGCATCATCCAGTGCAGAGCTCATCTTGCAGTGCAGCCTGGCCTTGAACTTGTGGCTTTTGGGTCCTGGGACTCCAGGTGGGAGATACTATACCCAGATCATTGCCGTCCCTCCCTCCTTGGTTTTAAAAGAGCAGCCTGGTCCGTAGAACGTGTGGAAAGACTGTGTGCTCTGCACTTGGGATTCAGAGTTTGTGCTTAGGGCCTGTCTGAGTCCTCTGGTAGAGAAGGCACTGTTCTTCTGGACTGACCCTGAAGCTCTCACGTGGGTGGGAGATATCAGTTAAGTTCCTGGAAACAGGATCCTTCACTGCAGGATTCCTTTCAAAGGTACTCAGTGGGAGACAGCGTGGGAAGGAGGATGGTGCTCAAAACCTCCTAGACTTTGATTAAAGTAGTGGCTTTCAAAGTGCTGCCTGAGATTACATCAGTACAACTCAAGACACTGTCAGACTGGCAATACGCTTTACGCAACACACCCCACACACCCCACACACCCCACACACCCCACAGACTCAGATACATCAGTGTGTTACCAGCTCTAAGGACTCTGACAGTATAAGAATCTCCAGTGATTCTGAAGTACACTCCAGCTGGAGAACCATGGGATTAAACTGTCCTTTTTCTCAGGACAGTTGCACCCCTGGCATGTTTAGAAATCACTGCTGAAGCTCAACCTGTGGAGGATGTGGGCAGCTATGGTCTCCTTGGCTCTAACACCTGCTTTCTTAGTGTCAAACAGTATAGTACTTTCCCAGTGCTTCTGCATCTGTGTGGACACTATCTGGGTCGGTGATGGGGTTGGAGGACCCTGGGTCTCCTGAGGGAGGGTTTAGCCACCCTGGGCAGGTACATGCTGCCTCACTGACGTGTGTGTTCCCAG
Seq C2 exon
GCCCTGGTGCGCTTCATGTATTCGCTAAGCAAAGGCTACCGGAGGATCACTTACCACAATTGGCGGCATGGCTTCAACGTGGGGCAGACCATGTTCTCCTTGCTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017816:ENSRNOT00000024171:12
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(11.5=50.0)
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:
CAAGAAGAACTTCCAGATGCCGA
R:
ATCAGCAAGGAGAACATGGTCTG
Band lengths:
254-1172
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]