MmuINT0063787 @ mm10
Intron Retention
Gene
ENSMUSG00000026938 | Fcna
Description
ficolin A [Source:MGI Symbol;Acc:MGI:1340905]
Coordinates
chr2:25626641-25627002:-
Coord C1 exon
chr2:25626967-25627002
Coord A exon
chr2:25626677-25626966
Coord C2 exon
chr2:25626641-25626676
Length
290 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
AGTATGCTGTATTCCTCCAGGGG
3' ss Score
6.57
Exon sequences
Seq C1 exon
GAGAGCCAGGAACCATGGGGCCCCCGGGAGTTAAAG
Seq A exon
GTGAGCCTAGTAAACAAGTCTCCTTAGGAAGGGACCAGGAAGGACAGCTCCACATGGAGCAATATGGGATTAGGGTCTTGTTGGCTTAAGGGGAGTCTTGAATACAAAGAAAGGTGGGTGTTCCCAGAAGCACTACTTCAGGGGTCCCCAAAGTCTCCCCGGATCATTATGCATATCAGAATGTTGGGGGCTCACAGACTAGGGGAGAGGCTGGAAGCTGGGAGGGGTACAGGAGAGGATGTGGCAGGATTCCAGCTCTGGGACAAGGCTAGTATGCTGTATTCCTCCAG
Seq C2 exon
GGGAGAAAGGCGATACAGGAGCTGCGCCATCTCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026938:ENSMUST00000028307:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(19.7=100)
A:
NA
C2:
PF0139113=Collagen=PD(16.4=76.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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