MmuINT0035256 @ mm9
Intron Retention
Gene
ENSMUSG00000061780 | Cfd
Description
complement factor D (adipsin) [Source:MGI Symbol;Acc:MGI:87931]
Coordinates
chr10:79354201-79354595:+
Coord C1 exon
chr10:79354201-79354357
Coord A exon
chr10:79354358-79354447
Coord C2 exon
chr10:79354448-79354595
Length
90 bp
Sequences
Splice sites
5' ss Seq
AGTGTGAGT
5' ss Score
6.96
3' ss Seq
CGCCCTTGTCCTGTCCCCAGGAC
3' ss Score
11.84
Exon sequences
Seq C1 exon
CAGCACAGCCCCGAGGCCGGATTCTGGGTGGCCAGGAGGCCGCAGCCCATGCTCGGCCCTACATGGCTTCCGTGCAAGTGAACGGCACACACGTGTGCGGTGGCACCCTGCTGGACGAGCAGTGGGTGCTCAGTGCTGCACACTGCATGGATGGAGT
Seq A exon
GTGAGTGGCAGGGGTGGGATGGGGGTGGGAGGAGCGGGGCCTCGGGAGGCTGGGACGTGGATCTGAGATGCGCCCTTGTCCTGTCCCCAG
Seq C2 exon
GACGGATGACGACTCTGTGCAGGTGCTCCTGGGTGCCCACTCCCTGTCCGCCCCTGAACCCTACAAGCGATGGTATGATGTGCAGAGTGTAGTGCCTCACCCGGGCAGCCGACCTGACAGCCTTGAGGACGACCTCATTCTTTTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000061780-Cfd:NM_013459:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.040
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
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTACATGGCTTCCGTGCAAGT
R:
CATCGCTTGTAGGGTTCAGGG
Band lengths:
171-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: