BtaINT0109235 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017480 | PDE6B
Description
phosphodiesterase 6B, cGMP-specific, rod, beta [Source:HGNC Symbol;Acc:HGNC:8786]
Coordinates
chr6:108847183-108848509:+
Coord C1 exon
chr6:108847183-108847266
Coord A exon
chr6:108847267-108848361
Coord C2 exon
chr6:108848362-108848509
Length
1095 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
GACTTCTGTTTCCTTTCCAGGAG
3' ss Score
11.74
Exon sequences
Seq C1 exon
CCAATGATGGACCGGAACAAGGCAGCTGAGCTCCCCAAGCTACAGGTCGGCTTCATCGACTTCGTGTGCACGTTTGTGTACAAG
Seq A exon
GTGAGTAGGGCAGCCCAGGGCCTGGCTGGGTTTGCAGGGGAAGGGTGAGACGGGGGCTGCTGTGGGGCTCCTTCCCGCTCAAATCCGCACTGAAGCTCAAAACCGTCAGCCTCACCCCAAGGGGGTCCCCTCCCTGTCAGTTCCTCAGAAGGATCATGAAATTTCCCACCCCAATCTCTCCCTCCCAGAACGTCCTCCTGCACACCCTGATGTCACACCCCAAACATCCCTTCCCGAACCCCATCTAAAGGCACCCCCATGCAGAGCCTGCACAGTGTTGTCAAGGCACCGACTGCAGGGTATGTGCGGTGCATCCATTCAGGGTCTGAGCTCTGGGAAGATGGGGGTGGTCCAGCCTCCAGCTGGGTGCGCCCGGCCCCGCAAACAGCTGAGCAGAGCCGGGGGCAGTGGGATGCGAGCCAAGGACCTGGCACAGGCGCTGGACCTCGGCTCTGGGGACTGGCCAGGGGTGGGGGCAGAGCCTTCCCAAAGGTCAGCCGCCATGACTGTTGGCTGCAGTCTCAGGGGTAGCCCCATACTCCAAGAAGGGTGTTGGGTTCTGACCACGTTGTCCCACTCCCCACCTCAGCCCCCAAGGCCTTGTGCTTCCCTTTACTGAAGCACCAGCTCCCTTTTCTGCCTCCACCAGGGGCTGGAGTCAGTGCTGGGAGGAAGGCGGGACCAGGACGCACGTGCTGGTCCTCAGGTTCACTGCCGGGGCCCACCAGGCACTGCCCCCCTGTGCCTTCCCCGCCTCCATCTACCCGCACAGCTTGTGTGTCCACACGTGTGCATGTGTGAGCATGTGCTCTGTGTGACATGCGATGTCTGCATGAGGGTGAAGGAGCCCCAGGACCCGCACATCTGCCCAGCCTTCTCAGCCCCCTTGCTAGGGAATGTCCTTTCTGCTTGGATGTTTTCTGTTCTTCAGGACCTCACCCCGTAGCTCCTGTTCCAACTTCAAGGACACAAACCACAAGGCCTTCTCCCTTTTTAGGTCTTTGCTGGGGATGTGGCATCTCTAACCACCCCACCTCTGGCCCAGCCCACCCAGGAGCCACTAGGGATGTGGTCTGACTTCTGTTTCCTTTCCAG
Seq C2 exon
GAGTTCTCCCGCTTCCACGAGGAGATCCTGCCCATGTTTGACCGGCTGCAGAACAACAGGAAGGAGTGGAAGGCCTTGGCCGATGAGTACGAAGCCAAGGTGAAGGCCCTGGAGGAGGACCAGAAGAAAGAGACGACGGCCAAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017480:ENSBTAT00000052174:20
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=0.120
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=FE(13.2=100)
A:
NA
C2:
PF0023314=PDEase_I=PD(9.3=38.0)
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:
AATGATGGACCGGAACAAGGC
R:
CTTTCTTGGCCGTCGTCTCTT
Band lengths:
230-1325
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]