MmuINT0063799 @ mm10
Intron Retention
Gene
ENSMUSG00000026835 | Fcnb
Description
ficolin B [Source:MGI Symbol;Acc:MGI:1341158]
Coordinates
chr2:28078247-28079251:-
Coord C1 exon
chr2:28079122-28079251
Coord A exon
chr2:28078382-28079121
Coord C2 exon
chr2:28078247-28078381
Length
740 bp
Sequences
Splice sites
5' ss Seq
AGGGTAGGT
5' ss Score
8.1
3' ss Seq
TCCTCCTCCATGCCCTGAAGGAA
3' ss Score
5.85
Exon sequences
Seq C1 exon
GTCTTCCAGAGGAGGCTTGACGGCTCTGTGGACTTCTTTCGGGACTGGACCTCATACAAGAGGGGCTTTGGCAGCCAACTAGGGGAGTTCTGGCTGGGGAATGATAATATCCACGCTCTAACCACCCAGG
Seq A exon
GTAGGTAATGCCGGCCAGATGGGGTAACCTTGGGACCCTGGGTCATGGGGCAAGAGTCCCCCATGGTTAGAGTATGCAATGCTCAGCAAAGTCACCCCAGGGAGTGAGATCACAGCTGTGCCCTTCTGCTGGGTGAAAGTCAGGGGATAAGGGCCTCCTCTAAACTGTGGGATATGACTTCTCAGGACCCAGCCAATGTCTTGGGGACATTGTTTTTCATCTCTAGCTGTTAATTCATCCAGAACACTTGCCTCTGGGTTCTACAAAAGTCCCCTTTGCCTCTACAAGCCACAGAGAAAGCAAGCTCTCTTAGTCCCTTCTCCTCCCACTGAAAATCACATAGCCTTTTGCCACTTACTCACTACCAGGACACCTTATTGTGTCTGCTTCTGTGCTTCCAATTTAAAAAAAAAAATCTAAAACCTTGCACATCCAGGTTCAGGCTACTGCATTAGAAAGCACAGCCCTCTGGGAGAATTCACAGACCAAAGCACGCTGGTTCATGCCAAGGGAACATTGCCAGTGGGTTTTCAGGAGTGTTACTGCCTTTCAAACAGACAGAGAAACACAGGGCACCTCTGAGGTACCTCTGTAGCCAAAGATGTTGGTACCTACCCCGGTGAATTCCAAGTTCAGTATCATTCATAGATATGAATACGATATCTGACTCCCATCTCTTATGCCTGGTGGCAGCTCACCTCAAGGGCTGAACCTTTCCCATCCTCCTCCATGCCCTGAAG
Seq C2 exon
GAACCAGTGAGCTGCGGGTGGATCTTTCAGACTTCGAAGGCAAGCATGACTTTGCCAAGTACAGCTCCTTCCAGATCCAGGGAGAGGCCGAGAAATACAAGCTTATCCTGGGAAACTTCCTTGGCGGTGGTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026835:ENSMUST00000028179:7
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=FE(20.2=100)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(21.1=100)
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:
GTCTTCCAGAGGAGGCTTGAC
R:
CACCACCGCCAAGGAAGTTTC
Band lengths:
262-1002
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