DreINT0111629 @ danRer10
Intron Retention
Gene
ENSDARG00000003449 | pde10a
Description
phosphodiesterase 10A [Source:ZFIN;Acc:ZDB-GENE-040426-1115]
Coordinates
chr13:4479518-4480094:+
Coord C1 exon
chr13:4479518-4479668
Coord A exon
chr13:4479669-4479938
Coord C2 exon
chr13:4479939-4480094
Length
270 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
GCATGTATCTGCACACACAGAGG
3' ss Score
2.48
Exon sequences
Seq C1 exon
CTTTGAGTTGGAGAAACTGTGCCGCTTCACTATGTCAGTGCGGAAAAATTACAGAAGAGTTCCATACCACAACTGGAAACATGCTGTGACGGTGGCACACTGCATGTACGCCATTTTGCAAAAGACCACTGGGATTTTTACTGAGCTTGAG
Seq A exon
GTAAGTATCAGTCTCATTAAACTGAAAATTCATGTGAAAATGTAGTAATTTATAGTAAATACTGCAGTGTTTTTGAACCATGCTATAGAACAGTGCTTAAATTAATCTGTTGTGGTAGTTTTATAGCTGTTGTGGTATCAAAATTGGACTGTTTCTTTAACTACAGGGCACATTCATAATAAGCAATGTTTTTGTTTGTGTGTTGATGTAGTGATATTTAGCATTGGTGGCTTTTAACACTTATTCCCTTGCATGTATCTGCACACACAG
Seq C2 exon
AGGAAAGGGTTGCTGATTGCCTGTTTATGTCATGACCTGGACCACCGCGGCTACAGTAACAGTTACCTGCAGAAGTTTGACCATCCGCTGGCAGCCCTGTATTCCACATCCACCATGGAACAGCATCATTTTTCACAGACCGTGTCCATCCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000003449:ENSDART00000144312:16
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=PU(11.9=54.9)
A:
NA
C2:
PF0023314=PDEase_I=FE(21.7=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:
GAGAAACTGTGCCGCTTCACT
R:
CTGCAGGATGGACACGGTCT
Band lengths:
297-567
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]