BtaINT0109209 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012945 | PDE6A
Description
phosphodiesterase 6A, cGMP-specific, rod, alpha [Source:HGNC Symbol;Acc:HGNC:8785]
Coordinates
chr7:63214173-63214565:-
Coord C1 exon
chr7:63214478-63214565
Coord A exon
chr7:63214274-63214477
Coord C2 exon
chr7:63214173-63214273
Length
204 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGA
5' ss Score
8.24
3' ss Seq
TCCCTCCATTTTCTCTTTAGAGC
3' ss Score
10.46
Exon sequences
Seq C1 exon
ATCCCAGAACCCACTGGCCAAGCTCCATGGGTCCTCCATCTTGGAAAGACACCACTTGGAGTTTGGTAAAACACTCTTGAGAGATGAG
Seq A exon
GTAGGATGAGAGCCCTCTGCATTGGCTTTGGGGCCTGAGAACGAGTCCCCATCTCACAAGAAGCCTGAGTGTAGCCAGGCATTGGCCTGGACTGTCTCTCTAGTCACCTGGGGCAGCCATCGGGAATTGAATGACTTTACTGCCAGCGTCACTTCTCCCTTCTCTCCTTCTCACATCACTTCTATCCCTCCATTTTCTCTTTAG
Seq C2 exon
AGCCTAAATATCTTTCAGAACCTCAATCGCAGGCAGCATGAGCATGCAATCCACATGATGGACATTGCGATCATTGCTACAGACCTTGCCTTGTATTTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012945:ENSBTAT00000036662:15
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=FE(11.6=100)
A:
NA
C2:
PF0023314=PDEase_I=FE(13.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGAACCCACTGGCCAAGC
R:
ATACAAGGCAAGGTCTGTAGCA
Band lengths:
180-384
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]