BtaINT0109236 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017480 | PDE6B
Description
phosphodiesterase 6B, cGMP-specific, rod, beta [Source:HGNC Symbol;Acc:HGNC:8786]
Coordinates
chr6:108848362-108849344:+
Coord C1 exon
chr6:108848362-108848509
Coord A exon
chr6:108848510-108849282
Coord C2 exon
chr6:108849283-108849344
Length
773 bp
Sequences
Splice sites
5' ss Seq
AAGGTCTGG
5' ss Score
3.93
3' ss Seq
CGTCTTGTCTTCTCTTGCAGTGG
3' ss Score
10.53
Exon sequences
Seq C1 exon
GAGTTCTCCCGCTTCCACGAGGAGATCCTGCCCATGTTTGACCGGCTGCAGAACAACAGGAAGGAGTGGAAGGCCTTGGCCGATGAGTACGAAGCCAAGGTGAAGGCCCTGGAGGAGGACCAGAAGAAAGAGACGACGGCCAAGAAAG
Seq A exon
GTCTGGGCTCCACTCCAGCCTCAACCAAGGCCACGCAGCCTGGCCCTGGCCTGCAGGGGGCGGGTGTGAGGCGACACTCATCTGGCCCTGGCAGGCTTCGGGTGGCCCTGTGGTCAGGGTGCCTGGACTCCGGGCTGCACAGACGGCCACCCTTCCAGAGGGAGGCCCATCCCCTAGGAACAGGCTGGTTGACTCAGGGTGGCTGATGAGCCCAGTCTGAAAGGGCCTGCTCGGGGTCCGAGTCAAGGGATTCTGGAGGGACGTCACCTTTATAAAGGGGAGGAAAGCCAACTCAGGAACTCTGTTCCCATCATCAATCAGCGGTTCCCTCTTAAGTAGTTCATAAACTCTATCTACGCTCCCATGCCAGCCTCAGAGCTGAAACAGCAGACCCATGGAACCTAAGAAGCAAGCTAGGGGTCAGCACGCATGGTGCTCCCGCCCCGGGCGCAGAGCTTGTTCCCCACCCCACCCCCAGCACTGTGGGAGCACGGCTCCATTGGCACCAGCCGGTGCCCCCACATCAGAGTCCTCGAGCCTTGCTTGTGCTCTGCAGCTGTCATCACCATTCTCTGAAACGTCCGCAGGGGAGAGAACCAACAGAAACCAGCCAGCTGCGAGGCCACTGCTGGAGCGTCACCAGAACTAAATTAGGATCAGCCGGGCTAATCGGCTTAGGCAGACCAGCCCCTGCCCTGCCCTTCCCCCTGCAGGGAGGATGGAGGCGCTGGGCCACTCACGGTCCTCGCTCACCGTCTTGTCTTCTCTTGCAG
Seq C2 exon
TGGGCACAGAAATCTGCAACGGCGGCCCGGCACCCCGGTCTTCTACCTGCCGCATCCTCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017480:ENSBTAT00000052174:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.120 A=NA C2=0.350
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=PD(9.3=38.0)
A:
NA
C2:
NO
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:
GAGTTCTCCCGCTTCCACGAG
R:
GAGGATGCGGCAGGTAGAAGA
Band lengths:
207-980
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]