MmuINT0035258 @ mm10
Intron Retention
Gene
ENSMUSG00000061780 | Cfd
Description
complement factor D (adipsin) [Source:MGI Symbol;Acc:MGI:87931]
Coordinates
chr10:79891992-79892655:+
Coord C1 exon
chr10:79891992-79892249
Coord A exon
chr10:79892250-79892424
Coord C2 exon
chr10:79892425-79892655
Length
175 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
CTAGTGGCCCTGCCCTACAGGGA
3' ss Score
6.75
Exon sequences
Seq C1 exon
CTATCCCAGAATGCCTCGTTGGGTCCCCACGTGAGACCCCTACCCTTGCAATACGAGGACAAAGAAGTGGAACCCGGCACGCTCTGCGACGTGGCTGGTTGGGGTGTGGTCACCCATGCAGGACGCAGGCCTGATGTCCTGCATCAACTCAGAGTGTCAATCATGAACCGGACAACCTGCAATCTGCGCACGTACCATGACGGGGTAGTCACCATTAACATGATGTGTGCAGAGAGCAACCGCAGGGACACTTGCAGG
Seq A exon
GTGAGGGACACAGTCTGGGTGATGTGGTGTGGGTGGGTGGAGTTGAGGGGCTGTGGAGGCTAGCTAGGGGGCCTGGCTTGTGGGAAGGGTGGGGTTCAGGAATCTCAGGAGCTTCTGGGAGTCAGTTTCTTGCTGGCTATTGGGTGGGCATGTCACTAGTGGCCCTGCCCTACAG
Seq C2 exon
GGAGACTCCGGCAGCCCTCTAGTGTGCGGGGATGCAGTCGAAGGTGTGGTTACGTGGGGCTCTCGCGTCTGTGGCAATGGCAAAAAGCCGGGCGTCTATACCCGAGTGTCATCCTACCGGATGTGGATCGAAAACATCACAAATGGTAACATGACATCCTGAGGGGACACCAGAGACACGTGGCTCAGGGAAACAAGAGACACGTGGCTCACAATAAATGCATGCATCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000061780:ENSMUST00000061653:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.058 A=NA C2=0.019
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(37.9=100)
A:
NA
C2:
PF0008921=Trypsin=PD(18.8=77.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGACAAAGAAGTGGAACCCGG
R:
AACCACACCTTCGACTGCATC
Band lengths:
253-428
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types