BtaINT0109229 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017480 | PDE6B
Description
phosphodiesterase 6B, cGMP-specific, rod, beta [Source:HGNC Symbol;Acc:HGNC:8786]
Coordinates
chr6:108843708-108844299:+
Coord C1 exon
chr6:108843708-108843808
Coord A exon
chr6:108843809-108844198
Coord C2 exon
chr6:108844199-108844299
Length
390 bp
Sequences
Splice sites
5' ss Seq
GAGGTCCGT
5' ss Score
4.55
3' ss Seq
CACCCCCCGCACTCCCGCAGACC
3' ss Score
8.44
Exon sequences
Seq C1 exon
ACCTCTGTGACAGGTCCCAGAACCCTTTAGCCAAGCTCCACGGCTCCTCGATTTTGGAGCGACACCACCTGGAGTTCGGGAAGTTCCTGCTCTCCGAGGAG
Seq A exon
GTCCGTGTCCTCCCCTCACTCTCCCGTAGGCCCTGGCCTGCTGACCTGCGCCCACTCCCCTGAACCTCCACAGCCAGCAACCACACCACATCGCTCTGGGCTGGAGAAGGGAGGCAGGCTTTGAAGCGATGGGGGTGATGGCACCCCTGGTGTTTCCCGTTTGGAAATGCCCCCTGAGGGCGGGGGCTCATATTCCGGGTGTTGAGGGAAGGTGGGCGTTAGATGCCCCCCAGTGCAATACGGGGCCACCGGTGTCTGGGGCCCATGACCCTTGGGTAGAAGATGGCCAGCAACATGGGGAGGGACAAATGGACGGCCTCCAGGAGGGAGTCGGGGACAGGCACAGAAGGGGGCGCGGCTGTGACAGGAGCACCCCCCGCACTCCCGCAG
Seq C2 exon
ACCCTGAACATCTACCAGAACCTGAACCGGCGGCAGCACGAGCACGTGATCCACCTCATGGACATCGCCATCATCGCCACAGACCTGGCGCTCTACTTTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017480:ENSBTAT00000052174:15
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(16.2=100)
A:
NA
C2:
PF0023314=PDEase_I=FE(16.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCTGTGACAGGTCCCAGAA
R:
TTAAAGTAGAGCGCCAGGTC
Band lengths:
201-591
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]