GgaINT0083122 @ galGal4
Intron Retention
Gene
ENSGALG00000011537 | PDE10A
Description
phosphodiesterase 10A [Source:HGNC Symbol;Acc:HGNC:8772]
Coordinates
chr3:42588670-42590388:+
Coord C1 exon
chr3:42588670-42588810
Coord A exon
chr3:42588811-42590232
Coord C2 exon
chr3:42590233-42590388
Length
1422 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAAA
5' ss Score
2.56
3' ss Seq
ATTATGTTTACATTTTCTAGGAT
3' ss Score
7.91
Exon sequences
Seq C1 exon
AGTCTGTGTGTATTTACGCCACCAGGAGCTAAAGAAGGACAACCACGGCTCATTCCTGCAGGGCCCATTGCACATGGCACTACGGTGTCAGCCTATGTAGCCAGATCCAGAAAAACATTGCTAGTAGAAGATATTCTAGGG
Seq A exon
GTAAAAAGCTTCCTCTTTTTAATGAGATGAATGTTACTTATTCTTAGAATGAATATTTTGATGCTGAGGTTTATTGAGCTGAATGTATAATGCTATAATTTACATCTGTCTTGCTACCAAGAAAAGAAGTTTAAGTTTGGATTAGCTTGATCTAGTAAATTCAGAACATCTAATTCATTTCTAAATCAATTTTTTGTGTGTGTGTTGTAACATCTTTTTGTTGTCAATTAATGGAAGTAATGGTATCATAGTCACTTAGAAAGAAAAATAAACACAACTCAGTCAAAACGCATGTCCTCCTGGTCTTGAAATACTCTACCATGCCAATCCCAAACAAATAGACTTCCATATAGTCAATCAAAATCTGATTTAATTATAACACTTAAGTCGTACTGACAAGAATGTCAATCAGAGTTTGGATTGTTAGATGGGATTTTGATCTCTACTTACATTAATGTAAAGCCAGAATATTTATGTTATCATTGGAGACACGTCAAAAGCACACTAATGTAACTGATAGCAAAATTCCAGCTCCTTTTTAAAAAAAAGGATTCAGGTACTCCTCATGAGATATTGTGATAATTTCTGGCAATCTGTGTGTCTGTCCTTTTTCATGTTTTGAAAAGCTTAGTTCCCTACTCTACAATTACATCAAACAATCAGTTAACTTATACTGTATGAGAGAACACTTTAAACAGAAACACACACACAAAAAAAGAAGAAGCTGCTTTCTCTGTAGTAGCAATTGGTACTTACCTGGACTACAGAGTGTTTATGTGGTGCTAGGGTTTTTCATTCTTTAACATATGGGGCCTAAGTTGTTACAGGTAATTTCCGATTAATGTCATGATGAGCTTGTATGTGAAGGTTGAATATTTTGATTTTGTATCCCTAATAAAATTCAGGGGAGTTATTGGGGATGGATTTTGAGCTCTTTGCTGGTTTATAGTGTGAGATTATTAACAGAAATCCAGACAAATTTTCTTCTTTGAAGTCATTTTTTTGGATGAGCATAGCGATCAGCTAATATGTTGTGCCAAGAGGAAAAGGTTAACTTGCTTTCACTGTGAAGTTACAAGTTGTGAACCTCTGCCAAGGCTATACATTATTTGCCTTCCTGTGAGTTTTGGACTCGCACAAACTCATCAGACCTCTTCTGTGGAAGGCATATAGGTGCTTCCCAGTCTCCTTTGTCATATAAGTTAGAGCTGAGAAAATTAGCTTTTTCTGTTGAATTTCATTCGTATATGTCTTAATGCCATATTTCAGTTATGCTGATAGTTAGGGTTTTTAGTGAATTTTATCAGTAATCATATTTTCAAGCGGATTTGATCAGTCAAGAAGAGGAGAAAAATACCAATGTGTATTTTTTATGACTGTTACAGTATTTATGTTTTATCAGATTATGTTTACATTTTCTAG
Seq C2 exon
GATGAGCGATTTCCCAAAGGTACTGGACTGGAATCAGGGACCCGTATCCAATCTGTTCTTTGTTTACCAATTGTCACTGCAATTGGTGATCTGATTGGTATCCTGGAGCTTTATCGTCACTGGGGCAAAGAAGCCTTCCATCTTAGTCACCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011537:ENSGALT00000018810:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.064 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
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGTGTGTATTTACGCCACCA
R:
TCTTGGTGACTAAGATGGAAGGC
Band lengths:
294-1716
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]