MmuINT0063792 @ mm10
Intron Retention
Gene
ENSMUSG00000026938 | Fcna
Description
ficolin A [Source:MGI Symbol;Acc:MGI:1340905]
Coordinates
chr2:25624666-25625347:-
Coord C1 exon
chr2:25625213-25625347
Coord A exon
chr2:25625089-25625212
Coord C2 exon
chr2:25624666-25625088
Length
124 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
ACAGGTCTGAGTCTTTGCAGGAG
3' ss Score
1.67
Exon sequences
Seq C1 exon
GGAACCAAGAGCTCCGAGTTGACTTACAAGATTTCCAAGGGAAAGGCTCCTATGCCAAGTACAGCTCATTCCAGGTATCTGAAGAACAGGAGAAATACAAGCTGACCTTGGGGCAGTTTCTGGAGGGCACTGCAG
Seq A exon
GTAAATCACACAGAAAGCTTAAAGCTATTGGTGGGGATGGGGAAAGGGGCCTGCAAGTTGCCCCTACCCATCTGGGATGGGCTCTGCCTTGGCCCTGAGAGCTGACAGGTCTGAGTCTTTGCAG
Seq C2 exon
GAGACTCCCTGACAAAGCACAACAACATGTCATTTACAACCCATGACCAAGATAATGATGCAAATAGCATGAACTGTGCAGCTTTGTTCCATGGAGCCTGGTGGTACCACAACTGCCACCAGTCCAACCTCAACGGGCGCTACTTGTCTGGCTCCCATGAGAGTTATGCGGATGGCATCAACTGGGGAACTGGCCAAGGTCACCACTACTCCTACAAGGTTGCCGAGATGAAAATCCGAGCATCTTAAGGTGCCCCAGTCTCCACCCAGCCTTTCAGCCATGTCCAGGCCATGTGGGGACACTGAAGGGAGGGATCTCTAGAAGTTGAAGTCTGTGTGCTTATCTATTGTGGGCTCTCTACACTCCCCTCTGGACACTGTCCAGCCCTGACTACTATGCACTAATAAAGGTCAGAGAAGCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026938:ENSMUST00000028307:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.122
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=FE(21.1=100),PF145131=DAG_kinase_N=FE(45.0=100)
A:
NA
C2:
PF0014713=Fibrinogen_C=PD(38.0=97.6),PF145131=DAG_kinase_N=PD(53.0=63.9)
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:
ACCAAGAGCTCCGAGTTGACT
R:
GACTGGTGGCAGTTGTGGTAC
Band lengths:
256-380
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