BtaINT0109250 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000445 | PDE6C
Description
phosphodiesterase 6C, cGMP-specific, cone, alpha prime [Source:HGNC Symbol;Acc:HGNC:8787]
Coordinates
chr26:14988062-14989914:+
Coord C1 exon
chr26:14988062-14988171
Coord A exon
chr26:14988172-14989826
Coord C2 exon
chr26:14989827-14989914
Length
1655 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
AATGACCCTTTTCCTCCTAGGTC
3' ss Score
10.25
Exon sequences
Seq C1 exon
ACAGGAAGACTGAAGAAATACTACACAGACCTTGAAGCCTTTGCCATGCTTGCTGCTGCCTTCTGCCACGACATTGACCACAGAGGCACCAATAATTTGTATCAGATGAA
Seq A exon
GTAAGTGAACATATGCTGCCGCATCGATAGTTCTGGTGCCCCTACCTCATTTGTAAATGCCTTCACTTTTTCAACTTTATTTCATCAAAGTATTGAATTCATACCTTTAGGTGCATTGATCTTCGACTTGCAGTTGTACACCCTTGGGTGACACCCCCAACTCAAGCTAGAGAACATTTCTTCCTGGGCTCACTACCTCTCGTGTTCCCCGTCCTTGTTCCTCCACCAGCTGAGCTTGCATCTTAACATCATCACCACCTTCCCCTCTTGCCTAAGAAAAGAAGTGCAGGCTCTCAGCTCGGACAGATTTGTGTTCACTGAGTTCACAAATTATTTAAACTTTCTAAGCTTTGAGTTCCTCATTGGGAAAATAAGAACTGTAATAATGCTACCTAACACTTAAGGTCACTGTAAAGATTAAATAAGGCTATGCATACAAAGCAGTCAGCTCACAGTTGGTGCTAGGTGGTTAATAATTATCAGGTATTATTATTATTAGTTACTATGTCATTGGCACTTTCAAAATTGGTCAGCAATGCCATGGCCAACCTAGCTCCTTGATAGTGACATTTAAGAAGCTCTGTCTGCCTTGGCTGTACTATATCCTCATCTCCTACACATAACCCACTACCCACAAGGTACCAGAGGAAGTGAGACATTTTAGAGAGTATGAGCTTTGGAGTCTGGGTTTGTGGGATCCAAACACTTCTTGTTAAGTGATCTTGGGTAAATCACTTAATGTATTCGAGATTCAGTTTCTTAACTGTTAAATGGGTACAATATTGACCTCTCAAAGACTGCTGTGACAATCACATGAAATTGTATGTCTGAAATTACATAGTAGATGCTCAAGAAATTTACTCAATGAATTAAGCAGTGACTTTTCACCTTCAGCAACTCTGCCAATCAGGCTTTGCCCTGAAGTGGGGATTCCCAGTCTGGGTTCAGGCAAGACACATCTTCCTCTAAGAGCTCCAGCCCGTGCTGGCTGTTCTGCATTCCTGAATGCAGGTTTCCTGACAATGACTGAGCTCTCTTCCGCCCTCCTAACTGCTTCAGCCAAATCAGTTTCAAAGGACTGAATATTTATTGAGCACTTGTGTACTGGGAGACCAGCTGAGAACTTGATACCTATGGCCTTTTTGAATCCTTGTAGCCCTCCCACCTGGGAGTTACTATTGTTCCCCTCTTTTACTGATGAAGAAACAAGTCCCAAACAGTCAAATCTAACTTGCCGTAGATGAAAAGAGAGTAGCCAAATGGGATGTGGCATCTTGTCTCCAGGTTTGCAGAAGAGATGAGACCACATCCCAGACTTCTGCTTTGGCCTGGTGTTGGGAGTCTGCATGGGTTCCATCAGCGATGGGCGAGCTGACCTTCTTCCTTTTCTTTCCGTGAGAGAAACTTTGTAGTTCAAGCAATTAAATCATTTTATGCATTTAACAAATTAGGGTTTTTCTTAAAAAGATTTTTTAAGAGCATATTCTTCTGTTCTAAATCTAAAAATTCTTTTCCAATATGTTACTTTCAACTGTTTCACAGTCATTAGGGGAGAGGGAAGACATGAAAAAAAAAATCCTCAGATTGCAAGGATTCTGTACTGTGTGATCTTATGTGTCATCTTTAAATAGCTAAAATGACCCTTTTCCTCCTAG
Seq C2 exon
GTCCACATCTCCGCTAGCAAGGCTTCACGGCTCTTCCATCTTGGAGAGGCACCACCTGGAGTACAGTAAGACGCTCCTGCAGGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000445:ENSBTAT00000000569:15
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:
PF0023314=PDEase_I=FE(14.5=100)
A:
NA
C2:
PF0023314=PDEase_I=FE(11.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAAGACTGAAGAAATACTACACA
R:
TCCTGCAGGAGCGTCTTACTG
Band lengths:
192-1847
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]