GgaINT0041682 @ galGal3
Intron Retention
Gene
ENSGALG00000006626 | PDE6C
Description
NA
Coordinates
chr6:21460480-21461789:-
Coord C1 exon
chr6:21461689-21461789
Coord A exon
chr6:21460588-21461688
Coord C2 exon
chr6:21460480-21460587
Length
1101 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
TTATCTGTATGTTTTCACAGGAA
3' ss Score
9.9
Exon sequences
Seq C1 exon
AGTTTAAACATCTTCCAGAACCTAAATAAGCGCCAGTTTGAAACCGTTCTACACTTATTTGAAGTTGCAATAATAGCAACTGACTTGGCTTTGTATTTCAA
Seq A exon
GTAAGTACTAAATTCTGTGTAACTTCCTACTGAAAAAATGTCAGTCCTATACTATTTACAGCTGTAGTTTTTGCTTGTTATATGCAGAGTACAGAGCTGTATTTTAAATTGCTTTTAGTAAGTCTAATTCTTGTTAAAAAAAACCAAGACATTCTTATTTTCACATTTCAAAACGTGTCTGTAATACTTTGTATACATTTAGTAGGTAATTCAAATATGCATTAAGTTACAGCAAATATATTTCTGAGTTGTAAATTTTGTAGCCCAATGATAAAGTTGTCTGCATGTGTGATATTTAGTGTACCATACTGCAATTATTCATACTGAACAGGAGCATGCTTATGAAAAAGAAATAGAGATTCTGGGTTAAAAACAGACATCAACTGATCCCAGTGCTAAATATGCCAAAGACCTCAAAGAAAAAAATATCCACCCAACTTTACTAACATAACATGTTTTTGTAAAGGTTATTGAGACTATTTTTTGTTTGTTTGTTTGTTTGTTAGTGCAGATGTCTCATGAGTGGGATGATTTAAAGCTAGGAGACAGGAAACAGTTCAGTTAGATGTTCAGTGGCCATTACTAAATCTCAATGAAAACTAACCCCATTATTTCTTTCATTTGGGATGCAAATTAAAAGATTCATTAAGCAGTAACAAGACAGATTTTTCAGAGTATTCTCAGTCAAGTTTCAGGGATTTTTTAGGATATTTGAGGGGACAGTTGTTAGTATTTCCTTCTCTTTTCTGAATTAATTGCAATACTAGAAGGAATATTATGAAGGAAAACGTAATACTAAAGAAACATTAATGTCACTTCTAACAGTTTAATATGCAGAGTCAGGAAATTTGTTATGTGGATCTTTCTCAGAAAGTTTGAAATAGTGCTTCATACATCAGGGGTATACAGCAAAATATAAATGTGTTAGCTTAATTGGAAACTTGGAGTTCAGGGGGAAAAAGGTGTCACTTTGAGACTACTATGAGTAGGATGCAACTTTGGAAATACATATGTATGAAAAATATGGGATTTATTTTCTGTTTTATTTATAATGCAGGATTTTTGTTTACTAATGTATGGTTTATCTGTATGTTTTCACAG
Seq C2 exon
GAAAAGGACTATGTTTCAAAAGATTGTGGATGCAATTGAAAAAATGGAAACAGAAGAGGAGGCAATTAAATATATATCTATTGACCCAACCAAAAAAGAAGTCATCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006626:ENSGALT00000010702:16
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(13.3=100)
A:
NA
C2:
PF0023314=PDEase_I=FE(14.5=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]