DreINT0005630 @ danRer10
Intron Retention
Gene
ENSDARG00000090818 | CACFD1
Description
calcium channel flower domain containing 1 [Source:HGNC Symbol;Acc:HGNC:1365]
Coordinates
chr21:5842172-5842507:-
Coord C1 exon
chr21:5842400-5842507
Coord A exon
chr21:5842311-5842399
Coord C2 exon
chr21:5842172-5842310
Length
89 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGT
5' ss Score
7.97
3' ss Seq
GCTTGTGCTCTGTTTTTCAGAGG
3' ss Score
9.24
Exon sequences
Seq C1 exon
GATGGCGCTGTTTCCCGTCTTTCTGAGCTTCTCTATCACAACTTTGGTTGGTAACGCTATTGCCTTTGCTACAGGAGTTCTGTACGGACTTGCGTCTCTTGGAAAGAA
Seq A exon
GTGAGTCTATATTTGCATCTATTTTTAACAGTTCTTAACCAAGTTACTTTTGACTCTTGCCATATCAAGGCTTGTGCTCTGTTTTTCAG
Seq C2 exon
AGGAGACGCTGTGAGTTACGCCCGATTGCAGCACCAGAAACAGGGCGACGAGGAGAAACTAGCAGGAACGACGGAGGAGTCTGTGCCCTGAATCTTCTATTCACCTCCTCTACCTCCAATGCACCCTTTTTTACGGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000090818:ENSDART00000130521:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.333
Domain overlap (PFAM):
C1:
PF102334=Cg6151-P=FE(32.7=100)
A:
NA
C2:
PF102334=Cg6151-P=PD(0.1=0.0)
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:
CGCTGTTTCCCGTCTTTCTGA
R:
CTGCTAGTTTCTCCTCGTCGC
Band lengths:
168-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]