BtaINT0109234 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017480 | PDE6B
Description
phosphodiesterase 6B, cGMP-specific, rod, beta [Source:HGNC Symbol;Acc:HGNC:8786]
Coordinates
chr6:108820838-108821318:+
Coord C1 exon
chr6:108820838-108820990
Coord A exon
chr6:108820991-108821228
Coord C2 exon
chr6:108821229-108821318
Length
238 bp
Sequences
Splice sites
5' ss Seq
GACGTGAGT
5' ss Score
9.22
3' ss Seq
TGCCACAACCTCTGTTTCAGGTT
3' ss Score
8.6
Exon sequences
Seq C1 exon
TGCCCCCACTTCAGCTCCTTCGCGGATGAGCTGACCGACTATGTGACGAGGAACATCCTGGCCACACCCATCATGAACGGCAAAGATGTCGTGGCTGTGATCATGGCTGTGAACAAGCTGGATGGCCCATGTTTCACAAGTGAAGATGAAGAC
Seq A exon
GTGAGTGTCTGGGGACCCTCCAGGTGCGCACGCCTGTGCCTGGGGGCGGTATCTGCGTGGCCGCTCTCCTCGCATGGCCCCGGGGGCTCACCTGCTGCAAGTCAGCCCACAGGCGAGGTCGCTGCAGGGCGTGTGGTCCCCGCTCTCAGCCGCTGGGTGTCTCCTCTGCAAACACATACCTGGGCGAGCGTCTGAAAGCTGGGGTTTTTCACTGCTGCTGCCACAACCTCTGTTTCAG
Seq C2 exon
GTTTTCCTGAAATACCTGAACTTCGGGACATTAAACCTGAAGATCTACCACTTGAGCTACCTGCACAACTGCGAGACTCGCCGTGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017480:ENSBTAT00000052174:2
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=FE(35.0=100)
A:
NA
C2:
PF0159021=GAF=PD(3.5=16.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTTCAGCTCCTTCGCGGAT
R:
CTGGCCACGGCGAGTCTC
Band lengths:
236-474
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]