MmuINT0063788 @ mm10
Intron Retention
Gene
ENSMUSG00000026938 | Fcna
Description
ficolin A [Source:MGI Symbol;Acc:MGI:1340905]
Coordinates
chr2:25626256-25626676:-
Coord C1 exon
chr2:25626641-25626676
Coord A exon
chr2:25626292-25626640
Coord C2 exon
chr2:25626256-25626291
Length
349 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
ACACTCATGACTCTGCCCAGGTG
3' ss Score
5
Exon sequences
Seq C1 exon
GGGAGAAAGGCGATACAGGAGCTGCGCCATCTCTGG
Seq A exon
GTAAGTACATCCCATAGTCTCTTCTAACGTTTCCAGTGTCTTTACCCTCTGGTTGTGAGTGAAGAAGAGTGAGCTTCGGGGGCTGAAGTAGCATGAAGCATCTGTGGGCCCAGCCAGCCTCCCAGCCAGCACCCTGACCTATCCCAACTCTGGGTATAGTCACAGACAGGACAATGCATAACAGCAGCCAAACACAAAGGAGCCTAATGGGGCCAGCCAGGATGGGTGTGCTGGGCTCTTTAGCAGGAGGGTACGGCACCATGTATGCCAAGTAGAATATGGAGTCTAGGGGAGTTATATGTGATGGGAAGGGACCAAGGAAGAAAATAACACTCATGACTCTGCCCAG
Seq C2 exon
GTGAAAAGGAGCTGGGAGACACCCTGTGCCAGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026938:ENSMUST00000028307:5
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=0.462
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(16.4=76.9)
A:
NA
C2:
PF0014713=Fibrinogen_C=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Cow
(bosTau6)
No conservation detected
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