MmuINT0063797 @ mm9
Intron Retention
Gene
ENSMUSG00000026835 | Fcnb
Description
ficolin B [Source:MGI Symbol;Acc:MGI:1341158]
Coordinates
chr2:27935142-27935453:-
Coord C1 exon
chr2:27935421-27935453
Coord A exon
chr2:27935270-27935420
Coord C2 exon
chr2:27935142-27935269
Length
151 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACC
5' ss Score
6.54
3' ss Seq
TTCTCTGCTTCTATACACAGGAC
3' ss Score
9.44
Exon sequences
Seq C1 exon
GAGACTCTGGGCCCTCTCAGTCATGTGCTACAG
Seq A exon
GTGACCACATTGCCTATCCTGTCCCTATATAAATGTTCTCTGTCCCTGTGTTCACTTCAGGCCCTTGCTGTGTGACTTTGTGCTTGTTGCTCACCTTCTCTGAGCATACCTGGGCTCCGGTCCCACCTTCTTTCTCTGCTTCTATACACAG
Seq C2 exon
GACCTCGGACCTGCAAGGAGTTGCTCACCCAGGGCCACTTTCTCACTGGCTGGTATACCATCTATCTGCCAGACTGCAGGCCCCTGACTGTGCTGTGTGACATGGACACAGATGGTGGAGGCTGGACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026835-Fcnb:NM_010190:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.944 A=NA C2=0.084
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(13.1=66.7),PF0014713=Fibrinogen_C=PU(0.1=0.0)
A:
NA
C2:
PF0014713=Fibrinogen_C=PU(19.7=97.7)
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:
GAGACTCTGGGCCCTCTCAG
R:
CCTCCACCATCTGTGTCCATG
Band lengths:
154-305
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: