GgaINT1009322 @ galGal4
Intron Retention
Gene
ENSGALG00000027497 | CFD
Description
complement factor D (adipsin) [Source:HGNC Symbol;Acc:HGNC:2771]
Coordinates
chr28:2751577-2751990:+
Coord C1 exon
chr28:2751577-2751730
Coord A exon
chr28:2751731-2751845
Coord C2 exon
chr28:2751846-2751990
Length
115 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
ACCCCTCCCGCACCCCGCAGGGG
3' ss Score
10.7
Exon sequences
Seq C1 exon
CACAGCCCCGGGGGCGGATCCTGGGGGGCTCGGAGGCGCAGCCCCACCGACGGCCCTACATGGCCTCCCTGCAGCTGGACGGGCAGCACATCTGTGGGGGATTCCTCATCGCCCCACAGTGGGTGCTGAGCGCCGCGCACTGCACCGAGCAGAT
Seq A exon
GTGAGTGATGTGGAGGTGTGGGGCTGCACCTGGGGGGGTGTCGGGGGGCGGAGGGGGACTCCGGGCCCTGCAGCCCCCCCAGCTCCGTGAGCTGAACCCCTCCCGCACCCCGCAG
Seq C2 exon
GGGGGATAAACGCTTCCAGGTGCTGCTGGGCGCCCATTCACTGACGGAACCGGAGCCCCACAAACGGCTCTACGACGTGCGGGCACAAATCGCCCACCCCGGCAGCAACATCCACAACAACCGGGACGACCTCCTGCTGCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000027497:ENSGALT00000044292:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.154 A=NA C2=0.184
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(20.2=86.5)
A:
NA
C2:
PF0008921=Trypsin=FE(21.5=100)
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:
CCTACATGGCCTCCCTGCAG
R:
GGAGCAGCAGGAGGTCGTC
Band lengths:
243-358
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]