BtaINT0109242 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017480 | PDE6B
Description
phosphodiesterase 6B, cGMP-specific, rod, beta [Source:HGNC Symbol;Acc:HGNC:8786]
Coordinates
chr6:108840539-108841453:+
Coord C1 exon
chr6:108840539-108840586
Coord A exon
chr6:108840587-108841306
Coord C2 exon
chr6:108841307-108841453
Length
720 bp
Sequences
Splice sites
5' ss Seq
CAGGTATCT
5' ss Score
7.33
3' ss Seq
CTGAACAACTCTCCCGCCAGGAG
3' ss Score
6.86
Exon sequences
Seq C1 exon
ATCTGTAATATTATGAATGCCCCTGCCGACGAAATGTTCAATTTTCAG
Seq A exon
GTATCTGTCTATTCATTAATGGAATGTGTACTGTACTTTAGGAAAAAAAATGTTGTGGTTCAGAAATGATGGACTGAATTCGTTTTTGCTGCTTAAGAAACAACCTCAGACCTCACAGGCTAAGGGCAGCACAGCATGTTCCGTGCACACAGGTCTGCTGCTTGGGTGGTTGCGGCTGCACCCGGCGAGGGTTCACGTCTGCTCCCTCTGGGGACGCACTACCGGGGTGGGCTCTTTTCCAAAGGAGGCCCAGGTCACGTGGACGGGTGGAACTGCGCTTTATCTTTCAGGGCCCCCTCCAGGAACTGGCCAGGGTCCATATTTCACTGGCCAACCATGAGTGGAATGTGAGCGGGGACTCACCACACCGTCTGTGGGGCCCGGGGGAATGCCAGGCCCCTTGTTTGGCAATTATTGGGAACTTAGCAGCAGAGCATTCAGTCGAGCGCAGGGACAGGCGGGGTGGGGGCGGCCTCCAAGAGCGGGAACCGATGTGACTGCAGCGCTCGCACGGTGAGGCACCTTGGCGGACGTCTTCCCTCTTCCAGGAAGAGGTCACCGCTGGCTCGCGGGCATGGTGGGCCGCCAGATGGGAGCAGGGACCCAGCCTCTGCCCTTTGAGGGCAGAAGAAGCGAGGTTCACGCTCCCTGGGTGACAAGCAGGCCCAGGCCAGGGTCAGACCCAGGGCAGCGGTCAGCTCTGAACAACTCTCCCGCCAG
Seq C2 exon
GAGGGGCCTCTGGACGACTCTGGGTGGATCGTCAAGAACGTCCTCTCCATGCCCATCGTCAACAAGAAGGAGATCGTGGGGGTCGCGACATTTTACAACAGGAAGGACGGGAAGCCCTTCGATGAGCAGGATGAAGTCCTGATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017480:ENSBTAT00000052174:8
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=0.020
Domain overlap (PFAM):
C1:
PF0159021=GAF=FE(8.5=100)
A:
NA
C2:
PF0159021=GAF=FE(27.1=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:
TAATATTATGAATGCCCCTGCCGA
R:
GGACTTCATCCTGCTCATCGA
Band lengths:
182-902
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]