BtaINT0109261 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000445 | PDE6C
Description
phosphodiesterase 6C, cGMP-specific, cone, alpha prime [Source:HGNC Symbol;Acc:HGNC:8787]
Coordinates
chr26:14965789-14966684:+
Coord C1 exon
chr26:14965789-14965929
Coord A exon
chr26:14965930-14966609
Coord C2 exon
chr26:14966610-14966684
Length
680 bp
Sequences
Splice sites
5' ss Seq
AAGGTCACT
5' ss Score
3.39
3' ss Seq
TTCAATATATTTGCCTTCAGGAA
3' ss Score
8.71
Exon sequences
Seq C1 exon
ATTCTTATGTGGTCAGCCAACAAAGTATTTGAAGAGCTCACAGATGTTGAGCGACAGTTTCACAAAGCACTCTACACTGTCAGGACATACCTGAACTGCGAACGATACTCCATTGGGCTGCTGGACATGACCAAGGAGAAG
Seq A exon
GTCACTGTTCCATATGTTTTGTCTCCCCTACCACCGGCTATAAAATGCACATCACATGAGATGCAACCCATTAAAAAATGGGTATACTATGTGAACTACCGGTATAGATCTTAAAAATCAGTGCCAAGAAAGTATGGTACTTTCATCTTTTGTATAAAGTCAACTTAAAAATCATCAATTACATTTTACATGGAAAAGAAGAAGGGAAAGTGTACTTTTTGGAGTAAAAAAGTATCTAGACTTGGCTTTTCCACTTCCTAGCTCTATGTGTCTTCAACAAGTCTTTTTTTCTTTTTTAAAAATTAATTAGTAGACCATATTCTTTTAGAGTATTTTTAGGTTTACAGAAAAAAATGAGCAGGAAGTTCAGAGAGTTTCCATACATATTCTTTTCCTTCCTCTTGCCCTCCCTCCTTCTAACTATGTGTCAGGGTAGGTGCTCTGTATTATTCATTTAATCCACATAATGACTCTGTAATATGCATTTTGTTATTGTCTCCGTCTTACAGATTTACAAGATTGACTTGTTTATAGTCACAAGTTCATAAACAGCATTACTGAAAAAGAGCTTTAAAATTCCAGAATTATAAATTAACATAAAATATGCAAACCAATGGCACTCAGATATGGTAGGTAACAGGACAGTTTGCTTAATAGTGTTTCAATATATTTGCCTTCAG
Seq C2 exon
GAATTCTATGATGAGTGGCCAGTCAAGCTTGGAGAAGTCGAGCCTTACAAAGGTCCAAAGACACCAGATGGCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000445:ENSBTAT00000000569:5
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(18.0=68.1)
A:
NA
C2:
PF0159021=GAF=FE(13.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTCAGCCAACAAAGTATTTGA
R:
CTGCCATCTGGTGTCTTTGGA
Band lengths:
206-886
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]