BtaINT0108962 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007758 | PDE10A
Description
phosphodiesterase 10A [Source:HGNC Symbol;Acc:HGNC:8772]
Coordinates
chr9:102013994-102015686:-
Coord C1 exon
chr9:102015603-102015686
Coord A exon
chr9:102014145-102015602
Coord C2 exon
chr9:102013994-102014144
Length
1458 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGC
5' ss Score
6.73
3' ss Seq
ACGGTGTCTCTTCCGCACAGCTT
3' ss Score
7.91
Exon sequences
Seq C1 exon
GTTCCACTTTGACGTTGGCCCCTTTGAAAACATGTGGCCTGGAATTTTCGTGTACATGATCCACCGATCCTGTGGGACAGCCTG
Seq A exon
GTATGCAAGACCACCTTGATGCCTCACCGTATTCTTGGTTAATAATTAAAACATGCCACAAACTGTTTTCTCTAAGCACTTGAATTTTTAAAAAAGGCTAAGATTATTAGACAGCGTGCAGCCTTCTTAGATTCCCTTGGGTCATAACCAGGTCCGACCAGGTGATGATGAGAATGTAGGTGTAGCTGGGATAAATAATCGCATACTGATCCTGCGGGTGTCTTGGAACAAGCGCACACGTTCAGCATCGCCTTTCACCTTTGACTTTAACGTGCCGGTTAGAGCAGGAGTGGAGGAGCCAGGCCTCCTGACTCAGTGGTGTCCTTTGCTCGGCGGCGTTACCTTGCGCGTTCCTCCCACGTCCCCCTTCTTCTGTGGCCTGTCCCTGAGGAACTGCGAGCCCTTTCGTTCGTTCGTTTGTTTTTAATGTAGCTTAAACACACAGTTAAAATGCAAGAAATGTTTCTTTCTTTTTTCCACTAGTCATTAAGTGGCTTATCGAGGCTCTTGGCTTCTCTAGAGCTAAATTGTCACTCCTGTCCCACTAAATTCTGTTTTCTCTTATTCCCATCAGCGGCTTTTATAAATCACTGTTTCAAAAGAATGAGCGCAAGATACCTAACTTATTTCTTAGATAGCAGTTGAGAGTTTGACCAGATGAAACTCTTGTAATGACACACCTTATACTTCAGGGACTATTTGGAAATTTTCAGTAGAGAAACATAAAGGTTATGCGTATTAATATTTAGAGGTTTTCTGAACTCTCATCTCTGGTATTTCCAGAGCCCTGTTTCATATTGATACGTTTTTGTCTTAAGTTGCCTCATATCCATTGAGAGAGTTAGTGGGGCTCTAAAGAAGTCTATTTTAAAAAAATACAAAATCTATTACCACACTGTAGAGTAAGAGCATGCGTCATAGTCTTTCATGTACTGTTAAGTATTTGAGTGTGACCATCTGCCACTGCCAGTTGATAATTTGAGTGTACCACAGTAATTTGGATTCCTTTTCAAAGGATAGCCTGTCATCTAGAAAATTCTTATGGTGTGCACGTTTGCAGTTTGTGAACGTGAATGCCCTTTTTTTAGAAGAAACTCTCAGAACACCCTTGAGCAGGGTGATGGTATGTTGCTGTCTGTTGACCCTGTGGGCTGCAGGAGATGGTTGACTGTTCAGGAAGCAGTGATGGGATTCGATGGTAGGGAAGGCAAGCAGATTCTGGGGTCTGCTCGCTGGTGGGCCCGTTACAGTGTCTGAGAGGAAGCCGGTAAAGAGTCCTCCTTCCTTGGTGGCTGGAGGAATGCCAGGGAGCTGGTGAACGAGGCTCACTCAGCACCCCGGAAGTCTCCCCGGGGCAGGTGTGTGTGGGCACAGACCCATGTGTCTAGACCAGAGCTGCCTCCTGGAGCCCGTTGTTTCTTTACCAGTTTCTGTCGTGACGGTGTCTCTTCCGCACAG
Seq C2 exon
CTTCGAGCTGGAGAAGTTGTGCCGTTTCATCATGTCTGTGAAGAAGAACTACCGCCGGGTTCCTTACCACAACTGGAAGCACGCGGTGACGGTGGCCCACTGCATGTACGCCATCCTGCAGAACAGCCGCGGGCTCTTCACCGACCTCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007758:ENSBTAT00000010204:12
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:
NO
A:
NA
C2:
PF0023314=PDEase_I=PU(11.9=54.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTTTGACGTTGGCCCCTTTG
R:
CTCGAGGTCGGTGAAGAGCC
Band lengths:
230-1688
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]