MmuINT0063798 @ mm10
Intron Retention
Gene
ENSMUSG00000026835 | Fcnb
Description
ficolin B [Source:MGI Symbol;Acc:MGI:1341158]
Coordinates
chr2:28079122-28079749:-
Coord C1 exon
chr2:28079622-28079749
Coord A exon
chr2:28079252-28079621
Coord C2 exon
chr2:28079122-28079251
Length
370 bp
Sequences
Splice sites
5' ss Seq
ACCGTGAGT
5' ss Score
9.4
3' ss Seq
TGTATATTTCACGGTCTCAGGTC
3' ss Score
7.74
Exon sequences
Seq C1 exon
GACCTCGGACCTGCAAGGAGTTGCTCACCCAGGGCCACTTTCTCACTGGCTGGTATACCATCTATCTGCCAGACTGCAGGCCCCTGACTGTGCTGTGTGACATGGACACAGATGGTGGAGGCTGGACC
Seq A exon
GTGAGTGTTGAGCTAGCCCCTGGTCACTGAACTTTCAGAACCCAAATTCCATGGTCAGCAGAAAATGAGCTATGTAGGATTCTGATCCTTTGTACCCCAGAGGGAGCCCTTTACTCTTTGAAGATAGAGAATCAGAAATGCTGACAGGTAACCTGTGTGAGAGAGCACACGTTGAAGGGAAGGCCACTCCTCTTCCTGCTGTGTGGCTTGGGTCATGATGCCTATTCTCATAGCTGACCCTCAGGTGTATGGGGTCTGCCATGACCTGTTTATGGCACTAGGTTCCCAGTCTTCTGAGAATCTTGGATTCCTGCTCTGCTTTGAGGCTTGGTTCCTTGTGTTGACTTCTGTGTATATTTCACGGTCTCAG
Seq C2 exon
GTCTTCCAGAGGAGGCTTGACGGCTCTGTGGACTTCTTTCGGGACTGGACCTCATACAAGAGGGGCTTTGGCAGCCAACTAGGGGAGTTCTGGCTGGGGAATGATAATATCCACGCTCTAACCACCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026835:ENSMUST00000028179:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.084 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)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCGGACCTGCAAGGAGTTG
R:
CTGGGTGGTTAGAGCGTGGAT
Band lengths:
254-624
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