RnoINT0035380 @ rn6
Intron Retention
Gene
ENSRNOG00000033564 | Cfd
Description
complement factor D [Source:RGD Symbol;Acc:2498]
Coordinates
chr7:12634998-12635392:-
Coord C1 exon
chr7:12635236-12635392
Coord A exon
chr7:12635146-12635235
Coord C2 exon
chr7:12634998-12635145
Length
90 bp
Sequences
Splice sites
5' ss Seq
AGTGTGAGT
5' ss Score
6.96
3' ss Seq
GGCCTTCGTCCTGTCCCCAGGAC
3' ss Score
10.53
Exon sequences
Seq C1 exon
TTGCGCAGCCCCGAGGTCGGATTCTGGGTGGCCAGGAGGCCATGGCCCATGCTCGGCCCTACATGGCTTCAGTGCAAGTGAATGGCACGCACGTGTGCGGTGGCACCCTGGTGGATGAGCAGTGGGTGCTGAGCGCCGCGCACTGCATGGATGGAGT
Seq A exon
GTGAGTGGCAGGGGTGGGGTGGGGGTGGGGCGAGTAGGGCCTCGGGAGGCTGGGACGTGGATCTGAGATGGGCCTTCGTCCTGTCCCCAG
Seq C2 exon
GACCAAGGATGAGGTTGTGCAGGTGCTCCTGGGTGCCCACTCCCTGTCCAGTCCTGAACCCTACAAGCATTTGTATGATGTGCAAAGTGTAGTGCTTCACCCGGGCAGCCGGCCTGACAGCGTTGAGGACGACCTCATGCTCTTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000033564:ENSRNOT00000015029:2
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=0.020
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(20.1=84.9)
A:
NA
C2:
PF0008921=Trypsin=FE(21.9=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:
CCCTACATGGCTTCAGTGCAA
R:
GCTTGTAGGGTTCAGGACTGG
Band lengths:
169-259
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]