RnoINT0108643 @ rn6
Intron Retention
Gene
ENSRNOG00000011310 | Pde10a
Description
phosphodiesterase 10A [Source:RGD Symbol;Acc:68434]
Coordinates
chr1:52399491-52401374:-
Coord C1 exon
chr1:52401234-52401374
Coord A exon
chr1:52399647-52401233
Coord C2 exon
chr1:52399491-52399646
Length
1587 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGG
5' ss Score
8.05
3' ss Seq
TTTCCTTGTTTGATTTCCAGGAT
3' ss Score
10.35
Exon sequences
Seq C1 exon
AGTCTGTGTGTCTTCACACCACCCGGAATGAAGGAAGGTCAACCCCGTCTCATCCCCGCAGGGCCCATCACCCAGGGCACCACCATCTCTGCCTATGTGGCCAAGTCTAGGAAGACCCTGCTGGTAGAGGACATCCTTGGG
Seq A exon
GTAAGGCGAGTTGACCCAGGAGGTCTGAGGACTTAATTAGAGAGATGATATATCGTTTTGATCTTATCATTTGAGTTGTTTTGTGGTTAGTTATAAAAGCATTAAGTGAAGATTCACTTAGAGCTTAACTTTCTTATTCAGGAAACTACACTGGTGGTGCTCACTGTGAAACAGAGCCCTTATTCCAACACACAGTTAAACAGAAAACGATAAAAGGTGTTTATATCCATGTAAAGTAGACGGTGCCTCTTGGTAATTCACATTGGGACTGCTGCAGGACTGACTGCCTCATCTGAATGGTTCCCGGCAGTGGCCAGTTCTCAGGTGTCTCAGGATGGCGATTCTGCCGAGGTGGGCTGTAGGTTTCTGGGTAATGTAAGACAGAAGTCAGCTGCCCATGAGTTAGGTGTAGCAGGGCCTGATGAGAAGAGGAGTGGAGAGTCAAAAAACCCTGTTGACATAGAGCCCACTGCCTTCCCCTCAGCCAGAATAGCAATGGCATGAACAGGCCTGAGGCCAGCCTGAGTCTCCTTAGTGCCAGAGGGTACCAGAAAAGACATGGCTGCCAAGAGGGATGGCAGACGGATCCTTAGCACAGTCTCTCAAGTGTATTCAGGCAGATGTCTGACGAATGTCACTGCAGGGGCATAGGCTTCAGGGGGACAAATACAGGCAATGACACACATGGGGGGAGTTTGGTGAAACTGCTGAACTGGACGGAGACTTGAAATGTGGTTTCTTATTCTTTCTGTCTCTTTTTTTTTCTTTTGACAATGATTTACCCTGATCAAAGTTACTATTTCTTTATTGGAGCAAAAGAAAAAGAAAGGAAGGAAGGAAGGAAGGAAAGAAAAAAGGAAGGAAGGAAGGAAGGAAGGAAAGGAAGGAAAGGAAAAGAAAGAAGGAAGGAAGGAAAGGAAGGAGAGAGAGAGAGAGAGAGAGAGAGGGAGAGAGGGAGAGAGAGAGAGAGAATGAACAGTGAGGAGAGAGAAGGAAGCAAGAGTAGGCACCCTGTGAATTCTCCTTTGAAAATGTTCAGTTCTGAACACAGGCTTTCAAAAGCTAAAAGCCACAGGAACATTTTCATCTTGCCCTTCATTCAGGGAGGGTCTGACATGTCCCGTCAGCCTCCTGTCATAGATGGTAGAAACCGAGGGCACAGAACTGCCATCTTGATATTAATCCTTCCCACTTCTCTGCACTGGCTTGCCGAGAATTTAGCGGAGAGCCAGAATTATCCAAGCTGAACTCAGCCTCACTGCGGTGATGAATAACTGATAGCAGCTGCCATGATTGCATGGCCCAGGCCCTTGAGGTTACCAGGACTCAGTCAACATGACTTTAAAAACAGAAGAGAAGGCGTGTTTGCGGACACCATATGGTGTCTGCCTGTGCTCTCTCTGCTGTGCTCACCTGGGAAAGCCTGGGATGGTTCCAGCAGAGAAGGAGGGGGCGAGTGCCACACTTGCTGAGAACCGTTCTTACTGTGGTCACATCACACTGACATCCACTGTCCCTCTCTTACAACCTGTGCATGCAAAAGCTAAGAGGCACTGAAGTCCCAGGCTTTCCTTGTTTGATTTCCAG
Seq C2 exon
GATGAGCGATTTCCCAGAGGCACTGGTCTGGAGTCAGGAACCCGAATCCAGTCTGTCCTTTGCTTGCCTATTGTCACTGCCATTGGAGACTTGATTGGCATCCTTGAACTGTACAGGCACTGGGGCAAAGAGGCCTTCTGCCTCAGCCATCAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011310:ENSRNOT00000043474:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.085 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0159021=GAF=FE(31.9=100)
A:
NA
C2:
PF0159021=GAF=FE(35.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTTCACACCACCCGGAATG
R:
TCCTGATGGCTGAGGCAGAAG
Band lengths:
287-1874
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]