RnoINT0108634 @ rn6
Intron Retention
Gene
ENSRNOG00000011310 | Pde10a
Description
phosphodiesterase 10A [Source:RGD Symbol;Acc:68434]
Coordinates
chr1:52372317-52374609:-
Coord C1 exon
chr1:52374454-52374609
Coord A exon
chr1:52372490-52374453
Coord C2 exon
chr1:52372317-52372489
Length
1964 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TTCCTTTGGTCTCTCTGCAGCTG
3' ss Score
11
Exon sequences
Seq C1 exon
CGCAAAGGCCTGCTAATTGCCTGTCTGTGCCATGACCTGGACCACAGGGGCTTCAGTAACAGCTACCTGCAGAAATTCGACCACCCCCTGGCTGCGTTGTACTCCACCTCCACCATGGAGCAACACCACTTCTCCCAGACGGTGTCCATCCTCCAG
Seq A exon
GTGAGCTTGCCCAGCTGAGGTGCACACTCCTTGTACCCCGGCCAGAGGGGATTCCTATGAGGTGGTAACTGCTCTGAAGGGAGAGAGGGAGAGCTTCACAGCTCACTGTGCAGGTAGCAGCTGAAGTTTACCGTGCTGTCTGAGGTTTACAGCCACAGATGTGAGCAGGTTTTAGGATCTGATTTTCTCCATATCCTGTAACCAGTACTCGGTGTCTTCAGCGACAGGGTCCTTACAGGCTAGTTACGTGGTGACCAGCAGCACTGGCGGTCATTTTGGAGACCTCTGAGGTCACTCTGACCAAAATAATTGGTAGGGAGCTGTCCCACATCTGGCAATGTGGTTTTGTTTAATAGCCCATGGTTTCTGTGAGTGGCATGGTCCACCCATGCAGAACACCCCATTTGAACTCTTTTTTTAAAAAGTTATATTTTGAAGTTAAGCTTCCTAATTATTCAGTTTCCATAAAGCTTAGGCTAACCCACCTATTTCCTTTCATCTCCTTCTTCCCCCTCCCTCCACACCCCAGGCTTCCCCCCAACCCTCCACACCCAAGTCTTCCCCTTTCTCACTCTGCACACCTCAGTCTTCCCCATCCCCATCCTCCACACCCCAGGCTTCCCTCCTCCACCCTCCACACCCCAGGCTTCCCGGCTCTCTTTTCATCCCCCCCACTTATATTTTTAATAGTATTGTTAAATAGTAGGTTTCCATATAAGTTTTTCATGTGTCTTAGCCACTGTTCTGTTGCTGTAAAGAGGCTCCATGACCAGTGCAAGTCTTATAAAGGACGGCATTTAATTGGGGCTGGCTTACAGGTTCAAAGGTTCAGTCCATTATCAGCCTGACAGGAACCATGGCAGTGGCAGCAGACATGGTGCTGGAGGAGCTGAGAGTTCTACATTTGGAGCTGTAGGCAGAGAGAGATACGGGGTAGGGAGGTGGTGTGTGTGTTGGGGGAGGGGGGAGAGCAGCAGAGAGACAGAGACAGAGGCAGACATTGGGCCTGGCTTCTGAAACCCCAAAGCCCATCCCCAGTGACCTACTTCCTCTAACTAGGCCACCTACTCCAACAAGGTCATACCTCCCAGTAGTAGTGCCACTTCCTATGAGCCCATTTTCATTCAAGCCACCATACTTAACTTTGGGCTATCCCCCACAGTTCTGTGCCCCTCCAAGCTTAAGCCTTCATGTCCCCACCTTTTTGTTTTGACCTATTTTGTTTTGACTTTTGTTTGACCTATCGTCCCTCTCTCAGCTTCCATGAATATATCCTCCCACCAACAGCTCCTTTCTAGTCTTCCGGCTTCCTCTCAATACCCAAGTCTTTTTGTGGATGGCTTCCGCCTACTGTAGGGTCAGAGTGTCTGCTACCCACCCATAAACCCAAACTCTACCCTCTCTGAAGCAGGGTCTCCTGTGTTTCTGGCTCAATGCGGGCAATTCCTTCTCTGGTAATACTATTCCATGGTACCCCCACGTAGCATGGAGGCACGGCCTTGTGCCCCTTCAGCTATCCCTGTGTTCCTCTGTGCTGACACCTCTTGGGCGTCTTTCTTGCCACTCAAGATTTCCTCTTCCAATTGGATTTTGCTGCACTGTGTCTGATGTGCCTACCTCTCCTGAGCCACAGGAAGATAGATCACTATTCACAGTGCGATGTGAAGTAGTTGAGGCTAGACAGGAATTTCCGTAGAGTACAAAACTTACTGGCCAAAGAGAAAAACATGCCGGCAACTTCGAAATTTCACACTATCAGCCCATCACCATAAAAAAACACACAGAAATAAGGTAAAGTCACATGGGTTTTGTGGCAGCAAGTGGTAGCCACTGGGTAAAATGGCTCATGTAAGCAATGGCTCCATCATTACAACCAAACAGCCCTGTGCTTCCCTGAGCTCGTCGTTACGGTGGCACTTGGCATTCTGGGTGCTACTGGTGGTTTTCCTTTGGTCTCTCTGCAG
Seq C2 exon
CTGGAAGGACACAACATCTTCTCCACCCTGAGCTCCAGCGAGTACGAGCAGGTGCTGGAGATCATCCGCAAAGCCATCATCGCCACTGACCTCGCACTGTACTTTGGGAACAGGAAGCAGTTGGAGGAGATGTACCAGACAGGGTCGCTGAACCTCCACAACCAGTCCCATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011310:ENSRNOT00000043474:17
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:
PF0023314=PDEase_I=FE(21.6=100)
A:
NA
C2:
PF0023314=PDEase_I=FE(24.2=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:
GCAAAGGCCTGCTAATTGCCT
R:
ATGGGACTGGTTGTGGAGGTT
Band lengths:
326-2290
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]