DreINT0111625 @ danRer10
Intron Retention
Gene
ENSDARG00000003449 | pde10a
Description
phosphodiesterase 10A [Source:ZFIN;Acc:ZDB-GENE-040426-1115]
Coordinates
chr13:4472163-4472781:+
Coord C1 exon
chr13:4472163-4472255
Coord A exon
chr13:4472256-4472594
Coord C2 exon
chr13:4472595-4472781
Length
339 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAA
5' ss Score
6.68
3' ss Seq
ATCTGTTCTGCTTTTCATAGAGA
3' ss Score
7.66
Exon sequences
Seq C1 exon
GTTTTCGATTGAGAAAGGAATAGCAGGTCAAGTGGCCCGAACAGGAGAAGTTTTGAATATTCCGGATGCCTATGCAGACCCCCGTTTCAACAG
Seq A exon
GTAGAACTTTCATTTATCACATAACATTTGTGACCCTGCACACACAAAAATTGTCTTATCATGCACGAGAATTACTAAAATACTTTGCATGAGTCAAAAATAAATGTTTATTATATTATTAAGTAAACATATATATAGATACTTTGAAATACATCAAAACTTTTTTTTGTTTAGAAATATGCACTGCCAAGAACTTAATGTGGACAGCTTTAAAAGTAATTTTCCCATAATTTACTGTAGATTCCCATTATTTACCCTCCTGTCCTTTTTTGTCCTTTTGCGGTGTGTGTGTATTTGTGTCTGTGTGCATTTCTTTAACATCTGTTCTGCTTTTCATAG
Seq C2 exon
AGAAGTAGATCTCTACACTGGCTACACGACGCGGAATATCCTGTGCATGCCCATAGTCAGCCGCGGGACTGTGATCGGTGTTGTACAAATGGTGAACAAGCTGGGAGGAAGTGCCTTCACTAAAACTGACGAGAACAACTTTAAGATGTTCGCCGTCTTCTGTGCTTTGGCCTTACACTGTGCAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000003449:ENSDART00000144312:12
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:
PF0159021=GAF=FE(21.1=100)
A:
NA
C2:
PF0159021=GAF=PD(39.5=92.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTCGATTGAGAAAGGAATAGCAGGT
R:
ATTTGCACAGTGTAAGGCCAA
Band lengths:
278-617
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]