BtaINT0109238 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017480 | PDE6B
Description
phosphodiesterase 6B, cGMP-specific, rod, beta [Source:HGNC Symbol;Acc:HGNC:8786]
Coordinates
chr6:108838346-108838648:+
Coord C1 exon
chr6:108838346-108838486
Coord A exon
chr6:108838487-108838573
Coord C2 exon
chr6:108838574-108838648
Length
87 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TCCCTTCTCTTCTCTTCCAGGAA
3' ss Score
13.8
Exon sequences
Seq C1 exon
GTGCTGCTGTGGTCGGCCAACAAGGTGTTTGAGGAGCTGACAGACATCGAGAGGCAGTTTCACAAGGCCTTCTACACTGTACGGGCCTATCTGAACTGTGACCGGTACTCGGTGGGCCTCCTGGACATGACCAAGGAGAAG
Seq A exon
GTGAGGCCCTGGCGCCCACAGGCCCCTGGCCGCCTCGTCCTGCTCTGCCGCTGAGCTGGTGCCCCGCTCCCTTCTCTTCTCTTCCAG
Seq C2 exon
GAATTCTTTGATGTGTGGCCCGTGCTGATGGGAGAGGCCCAGGCGTACTCGGGCCCCCGCACACCTGACGGCCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017480:ENSBTAT00000052174:4
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:
PF0159021=GAF=PU(18.1=68.1)
A:
NA
C2:
PF0159021=GAF=FE(13.6=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:
GGCCAACAAGGTGTTTGAGGA
R:
GAGTACGCCTGGGCCTCTC
Band lengths:
177-264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]