BtaINT0109206 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012945 | PDE6A
Description
phosphodiesterase 6A, cGMP-specific, rod, alpha [Source:HGNC Symbol;Acc:HGNC:8785]
Coordinates
chr7:63218093-63219242:-
Coord C1 exon
chr7:63219096-63219242
Coord A exon
chr7:63218201-63219095
Coord C2 exon
chr7:63218093-63218200
Length
895 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
TGCTGTGTGTGTGTTCGCAGGCC
3' ss Score
10.64
Exon sequences
Seq C1 exon
CAAGGAGAGCTGCCAGATGCAGACAAATATGAAATTAATAAATTCCACTTCAGCGACCTGCCCCTGACGGAACTGGAGCTGGTGAAATGTGGAATTCAGATGTACTATGAGCTCAAAGTGGTGGATAAATTTCACATTCCTCAGGAG
Seq A exon
GTGAGGTTGAAATAAACCTTTGGTTTCCCTTTTTTTCCCTTCCTTTCTTGCTTAAAAAACAAAACAAAACAAAAAAAACCTCAATCTGTAAACTGCCTTAGAAAGAGTGTACTCTCAGTTTTTAAGATTTAAAGCATTAGTCACATCACACAGATGAGTCATTTACCAGAAAAGAGACACATGGTTCTTCTGAGCTGTGATGTTTCTCAAGGTAGGTTCTGAGGCACTGAGTTCTGAAGGTTGTGGATAAAAGTGATGCCAAAAAAAAAAAGTTCCTACAGTTCAACAGGGCGGGAAATGTGTGTTAAATCCATTTAGACAGGGCTTTTTCCCCTGCAGGATTCCTTAGGTGTGCTGTGCATCTAGAGGCATGGGGATGGACAGAAAAGGTGGAGCTGGGGGTGTACTGTGTGCAGAATTTCCCAGACTTCTTTGATTAAAGCAGCAGTCCTAACTGTGCTTTAAACCACATCAGTATCACCTGAAAATGGATCAATGCCAGCACGGGTCCACCAACACCCACACATACACCCTCTTTCTCCCCCTCCTCTCTCCACTGTCTGTGAGGAATCAGAAGTTGTTTTAACAAGACCTTCCCATATCCCACAGCGATGCAGATATGCACTCAAGTTTGAGAACCACTGATCTCAACACACCTTTGGTTTTCTCTCCTACACTTCCTCCAAGCTTCTCCCAGGGCCTTGTTTCATAACCACGTCCATTGTCATAGTATCCAGCCGTCTGAAAGTGCTCTCACAGTCTTAGTGCACCTATTGCTCCTCCCACTGTGGTCCGGCGTGGGGACCGGAACACTGAGGGGCTCGGCCAGGCGGGCCCCCCTGCCCGCCCCAGTGCGGTGCTGCTGCCTTACAGTGTGCTGTGTGTGTGTTCGCAG
Seq C2 exon
GCCCTGGTGCGGTTCATGTATTCCCTGAGTAAGGGCTACCGCAGGATCACCTACCACAACTGGCGGCACGGCTTCAACGTGGGGCAGACCATGTTCTCCTTGCTGGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012945:ENSBTAT00000036662:12
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(7.2=50.0)
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:
CAAGGAGAGCTGCCAGATGC
R:
CACCAGCAAGGAGAACATGGT
Band lengths:
255-1150
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]