HsaINT0121862 @ hg19
Intron Retention
Gene
ENSG00000112541 | PDE10A
Description
phosphodiesterase 10A [Source:HGNC Symbol;Acc:8772]
Coordinates
chr6:165844910-165846617:-
Coord C1 exon
chr6:165846462-165846617
Coord A exon
chr6:165844961-165846461
Coord C2 exon
chr6:165844910-165844960
Length
1501 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
GTATTTCTTGTTTTTTTTAGGTT
3' ss Score
11.63
Exon sequences
Seq C1 exon
GATGAACGATTTCCAAGAGGTACTGGACTGGAATCAGGGACTCGTATCCAGTCTGTTCTTTGCTTACCAATTGTCACTGCAATTGGTGACTTGATTGGTATTCTCGAGCTGTATCGGCACTGGGGCAAAGAAGCCTTCTGTCTTAGTCACCAGGAG
Seq A exon
GTAAGGCCTTTAAATGCTGCATGTTAGAATTTTTAGTTGTACCTAGCTCATTGAAGGTGCTTGTTAGTATTGCTAAGTAATACTAAACTGAAAATACATGAATTAATATTTAAAATCACAATTTGCTTAACAGTGTTTTGATACTAATGATAATGATTTTAAAACCTGTTTCTGTTTAGAGAGGAAACAGGTTACATAAGAGATATGGTCCTTTTGTTAAGTAAAATCCAGTGTAACAATAAAAGGTATGCTGTACTCTGAGTCATAGAAAGTAGTAGAAGGACTTTGGAGACTTTTCACACTCTGGTTGTCTTTATGTCTTCTTTAAAATGTCTTTTTCTTAGCTTGTGTCCTGCATAAAAGACTCTAGTGTCAAATACATTTGAATTCCATTCACTATTCACTCAATAGGCTCATTACTACTAAAAGCAAATATTAAAATGATACATTTATCACATCCAGTATAAACCAGTTTCCTTCAGTGGCCTCACTCCTGTTCACTTGCCTGAATGAACCCATCTCCTGCGACCCCACCTGTCCCTCACTCGCTCCAGCCACGCTGGATCCTCAGGCAAGGCTGACAGGCTACTTAACTGAGGCCTTTGCATTTTTTCTTCTCTCCACTTATCCCCCTCACAGCCACATCCTTCAGAATTTCCTTAAATGTTGCCTTCTCTATAAGGCCCTCCCTGAACACTTCATGTACATTTGAATGGCTCCTATCCAATGTTTCTTTCTCTCTTCTTCTGCTTTTTCTCTATAGCACCTGTCACTATCTAATATATTATATGCTACACTTATTTCATTTCTTGTCCTTCTCCCTGAAGTACACTGAAGGCCACTCCATTTCTGTTATTTACTACAGTATCTCCAGCACCTAGAATAGTGCCTGGTACATAATAGACACTCATGAATATTTGTTGAATGAGTGAATAATAAAAGAAGTAGAAAAGCTAGTAATTTTGAGGAACTTGTTAGCTTGTGTATAAATATATGTGTATGATTTTTACATTTTAGAAATATTTCATTATTTAAAGTGGTCATTAGATTGCTTTTCAATAGTATTTTTGTTAAACCGAAAAGTAGTAATTTTGTGAAAATCATTGGGCTACAGCTCTCTTAACAATCAGTTTGTTTTCCATTTTATCCAAAATTAAGATGAACAAGAGAACATTAAAGTCAGTTAAATAGATGGGGAAAATATAAAAGAAAAACCTTGTAAATATTTGGTGCTTTGTGTTTGGAAAATGTTCAAAAGCTCAGTGATGTCAGAAAATTCTTCATATACATGTATCCCCGAGTCCTTTGTTGAGATGACTACAAGTAGTGTGTGTGTGTATATATATATATATGTTATGTATGATATATATTATATATAGTATACTATATATAGTATATATATGTTATGTATTATACATATGATATATAGTATATTATATATAGTATATATATATACGTTATGTATTATTACTTATAGGTATGTATTTCTTGTTTTTTTTAG
Seq C2 exon
GTTGCAACAGCAAATCTTGCCTGGGCTTCAGTAGCAATACATCAGGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000112541-PDE10A:NM_001130690:7
Average complexity
IR-S
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:
PF0159021=GAF=FE(35.9=100)
A:
NA
C2:
PF0159021=GAF=PD(8.5=70.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGAACGATTTCCAAGAGGTACTGG
R:
CTGCACCTGATGTATTGCTACTGA
Band lengths:
206-1707
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)