GgaINT0041685 @ galGal4
Intron Retention
Gene
ENSGALG00000006626 | PDE6C
Description
cone cGMP-specific 3',5'-cyclic phosphodiesterase subunit alpha' [Source:RefSeq peptide;Acc:NP_990317]
Coordinates
chr6:19906792-19907083:-
Coord C1 exon
chr6:19907009-19907083
Coord A exon
chr6:19906876-19907008
Coord C2 exon
chr6:19906792-19906875
Length
133 bp
Sequences
Splice sites
5' ss Seq
ATTGTAAGC
5' ss Score
5.06
3' ss Seq
TTACTGCTATTCTGTTCTAGCCC
3' ss Score
9.55
Exon sequences
Seq C1 exon
GTTGCCCTCATGGTTGCAAATGAATTTTGGGAGCAAGGTGACCTGGAACGAACGGTACTACAGCAACAACCAATT
Seq A exon
GTAAGCACAAAATAATTTAACTGTGTTAAGCAATATTGTCTGTTATTTAATTACTGTACAGATGATGGTCCACAATTATTATTAGTTCATTATAACCAAAAGCATGATCTAAATTACTGCTATTCTGTTCTAG
Seq C2 exon
CCCATGATGGACAGAAACAAAGGTGATGAACTACCTAAGCTCCAAGTTGGTTTCATAGATTTTGTGTGCACATTTGTGTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006626:ENSGALT00000010702:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.180 A=NA C2=0.214
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=FE(9.6=100)
A:
NA
C2:
PF0023314=PDEase_I=FE(10.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCCCTCATGGTTGCAAATGA
R:
ATGTGCACACAAAATCTATGAAACCA
Band lengths:
146-279
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]