DreINT0005628 @ danRer10
Intron Retention
Gene
ENSDARG00000090818 | CACFD1
Description
calcium channel flower domain containing 1 [Source:HGNC Symbol;Acc:HGNC:1365]
Coordinates
chr21:5845640-5845933:-
Coord C1 exon
chr21:5845861-5845933
Coord A exon
chr21:5845766-5845860
Coord C2 exon
chr21:5845640-5845765
Length
95 bp
Sequences
Splice sites
5' ss Seq
GGTGTAAGA
5' ss Score
3.6
3' ss Seq
GTGTGTTTTTTGTCCTTTAGGTT
3' ss Score
12.22
Exon sequences
Seq C1 exon
CATGTGCAACAATGGGCGTTTGGAACTGTGTTACTGTGCATCCGCTGAACATAGCTGCTGGAGTTTGGATGGT
Seq A exon
GTAAGAACTTTTTCCCCTTTTTAATTGCCGTTGTTCATTAAGCTGGTGTTTTGCCACTCAGAATATGAAGTATGTGTGTGTTTTTTGTCCTTTAG
Seq C2 exon
GTTGACAGCGTTTGTGCTGTTTCTGTGTGAGGTGCCGTTCTGCTGTCAGTTTGTGGAGTTTGCTAATGCAGTGGCGGCGCGTGCAGATCGACTGAAGCCCTGGCAGAAAGCACTCTTCTACTGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000090818:ENSDART00000130521:2
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=0.000
Domain overlap (PFAM):
C1:
PF102334=Cg6151-P=FE(21.8=100)
A:
NA
C2:
PF102334=Cg6151-P=FE(38.2=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:
ATGGGCGTTTGGAACTGTGTT
R:
CTTTCTGCCAGGGCTTCAGTC
Band lengths:
172-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]