BtaINT0109257 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000445 | PDE6C
Description
phosphodiesterase 6C, cGMP-specific, cone, alpha prime [Source:HGNC Symbol;Acc:HGNC:8787]
Coordinates
chr26:15006278-15006903:+
Coord C1 exon
chr26:15006278-15006361
Coord A exon
chr26:15006362-15006749
Coord C2 exon
chr26:15006750-15006903
Length
388 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TGACCTAAAATTCTCTCTAGGAG
3' ss Score
7.73
Exon sequences
Seq C1 exon
CCTATGATGGACAGAAACAAAAAAGATGAACTACCTAAACTTCAAGTTGGATTTATTGACTTTGTCTGTACTTTTGTATATAAG
Seq A exon
GTAAGTAAACAGATTATGTGAGTGAAATATATCATTTTCTGGATGAGAAGTTTTCTTTCAAAATGTAACTAAAATCAAAGTCACCCTCATCCCTCATGGAAAGTCACTAAGGGTGTCATCATTTCTCCAAGGTAGTTTGAGGTATTACCCTTATCTTTCCTTCAAGGATGCAATGAAAGGTGAGAGAACTCAGGTGTAAGCAAACTGAATAAACTTAGGTGAGCAGGAAAGACAAGAGCTACCTTTCCCACTTACAAGGTACTGAATTAATCTCATCCTAACAGCTCTGAGCGCTGTAATAATTCTTTAGGGCTCCTTCTCTGCGTATGAAAGGTACTGAAAATGAACCAAATGATTTAAGTGGTTTCTGACCTAAAATTCTCTCTAG
Seq C2 exon
GAGTTTTCACGGTTTCACAAAGAAATCACACCTATGCTGAATGGTCTTCAAAACAACAGAGTGGAATGGAAATCCCTAGCTGATGAGTATGATGAAAAGATGAAGGTAATTGAAGAGATGAAAAAGCAGGAAGAAGGAAATACGACAGAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000445:ENSBTAT00000000569:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.107 A=NA C2=0.308
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=FE(10.8=100)
A:
NA
C2:
PF0023314=PDEase_I=PD(7.6=36.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGAACTACCTAAACTTCAAGTTGG
R:
CTTTTTCTGTCGTATTTCCTTCTTCC
Band lengths:
214-602
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]