MmuINT0063790 @ mm10
Intron Retention
Gene
ENSMUSG00000026938 | Fcna
Description
ficolin A [Source:MGI Symbol;Acc:MGI:1340905]
Coordinates
chr2:25625434-25626139:-
Coord C1 exon
chr2:25626012-25626139
Coord A exon
chr2:25625564-25626011
Coord C2 exon
chr2:25625434-25625563
Length
448 bp
Sequences
Splice sites
5' ss Seq
ACCGTGAGT
5' ss Score
9.4
3' ss Seq
TCCCCTGCCCCACGCCACAGGTT
3' ss Score
8.24
Exon sequences
Seq C1 exon
GACCCCGGAGCTGCAAAGACTTGCTGACACGGGGCATCTTCCTGACTGGCTGGTACACCATCCATCTTCCTGACTGCCGGCCACTGACTGTGCTCTGTGACATGGATGTGGACGGTGGGGGCTGGACC
Seq A exon
GTGAGTGAGGAGGCTCAGTGTGGGGCATAAGAGGTTTGCACACAGCGGCCACACTCTGGAGAGCTGAAGTCAGGGAGAGAGCAGAGCAACCAGGGGGAAAAAAAAAAAATAATGTGGTGCTTCACCCTCCAGCGAGACCCAAGCACTGGTGGACCAGATCTAGAACTCTGTGAAGTGAGTTAAGTGGGCGACAGGACCCCAGTCATAACAGATGCATCAAAACATGTCAGCCCTGGGCCACTATCATCTATCAGTTACCTTCTCAGTCCCCTGTACTCCCTGCCCCTGAAAACTATTCCTCACTCATGAGGTTCTTTATAAGAGTGAGAAAAACAAAACAAACCAACAAAAACCAAATAACCAACCAAAGCCCTGGACCTAGACATATCCCTCGGGTTCCTGCTCTTAGGAACCTGATACCCACATGCTCCCCTGCCCCACGCCACAG
Seq C2 exon
GTTTTTCAACGACGAGTGGACGGGTCTATCGATTTCTTCCGAGACTGGGACTCCTATAAAAGAGGCTTTGGCAACCTGGGCACGGAGTTCTGGTTGGGTAATGACTACCTGCACCTGCTCACAGCCAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026938:ENSMUST00000028307:7
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:
PF0014713=Fibrinogen_C=PU(19.7=97.7)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(20.2=100),PF145131=DAG_kinase_N=PU(1.0=2.3)
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:
CCCGGAGCTGCAAAGACTTG
R:
TGAGCAGGTGCAGGTAGTCAT
Band lengths:
246-694
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