MmuINT0063800 @ mm10
Intron Retention
Gene
ENSMUSG00000026835 | Fcnb
Description
ficolin B [Source:MGI Symbol;Acc:MGI:1341158]
Coordinates
chr2:28076378-28078381:-
Coord C1 exon
chr2:28078247-28078381
Coord A exon
chr2:28076823-28078246
Coord C2 exon
chr2:28076378-28076822
Length
1424 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
TGCATGTTCTTTCTGAACAGGTG
3' ss Score
10.89
Exon sequences
Seq C1 exon
GAACCAGTGAGCTGCGGGTGGATCTTTCAGACTTCGAAGGCAAGCATGACTTTGCCAAGTACAGCTCCTTCCAGATCCAGGGAGAGGCCGAGAAATACAAGCTTATCCTGGGAAACTTCCTTGGCGGTGGTGCTG
Seq A exon
GTGAGCAGCTTGGGTTTGGGGGGCTTACCTGTGAAGTGAGGGCTTCTGAACTACTCTGGGAGTAGAAGGGCCTGCTTTGCATCTCCCCCTGGTGGCCTTGAGCCTAGGGTTGACATCAGCGAAATACTAATATCTGCATCTTTACACCATGTGAGTTCCATGAGATTCGGTCTGTTAGCACTCCCAAGGGCCCACACCCAGCTCCATTGCGTAGTTATTGAGGACCACTGACTACTGTCTCCAATGAAGTCAGAAGGAGATGGTCATCTCCTGGGTGCTAAAGCCTTGTTTCCACAAAGAAAGAACATATCTGGGACCCTGAGTTAGCCCCAGCCTCCCATCTCTGTGACAGAGAACTAAAGGAAGTAAACTCAGAAGGAAGGGAGAATAATTTGGCCCATGGTTTCATCCTTGGTCACTTGGGCCCAAGGTGAGGTCATGGTGAAAGCCTGTGGTGGAACAAAGCCTCTCGTTCTAGGGCCAACAGGAAGCAAAGAAAGGGGCTCAAAGGAACACCCCTCAAAGGCATGTCTTAGCAATCCTTTTCTTCTAACCAGGCCCTGCCTTTCCCAGTGTCACCATCTCCCAGAATCTATCAGTGACTAACCCACTGAGGTCTCAGATCTCCCAGTCCAATCACCTGACTCTCAAACAGTGCTTGCCTTCAACCAAGCCTTCGACCTACAACACTTTTAGGGGATGTTTCATCTCCAAACCACAGCAGCACGTATTTCCCAGAAGGACTTGTGGTTTGGGAAGTGCATCTTATAGAGTGCACCCTACAGCATATGAACCTGGAGACAGTGGATTGGAGAGATTCCCAGTGTGATTCGGGAAACCTTGGGGCATGACCACACCTATTCAACTGATGAACTCAAAGCTAAGTGAGGCAGGCCACATACTCACGAGATTTGATGGTGACAGCTCTGAAATGTATGCACCAGCATTGCACCATATGACCTTGAACTTTTAGAAGGAAAAAAACCAAACAAAGCAGACAGTGCTTTGACCATGTTCTGTGGGTGGGGACCCTGAGGCCATTAGGAGGTCCTTGCGAGCTTCACGTTCAGCAAGGGAGTAGAACAGGATGCACCCTAGAGGCCTGGAGGCTTGAAGCCATTCAGTGCCTACTGAGAGACAGCCAGGGCAAGAGAGAAGTCAAGAGAAGTCCTAGAGAGATACAGGCTACAGGAGAAAGAGAGCCAGTCCTGGTGATGCTGTTCAGAGGGTTCAGTAGTGTGGTTAGGGAGAAAGATACCAATGGCAACCAGGACTTGCTGGACCAGGAGGAGACAGTCATATCTGATGCGTACTCTCTCCCAAGGCTTATGTAGCTGGGTCCCTCACCTGGATCTCAACTGATAAATCCTCCAATCGAGGATGAGCCATCTAGCATCTATGTGATGCATGTTCTTTCTGAACAG
Seq C2 exon
GTGACTCTCTGACACCCCATAACAACAGGTTATTCTCCACCAAAGACCAAGACAATGACGGCAGTACTTCCAGCTGTGCCATGGGTTACCATGGAGCCTGGTGGTACTCCCAGTGCCACACTTCCAACCTGAATGGCCTCTACCTGAGGGGTCCCCATAAGAGCTATGCAAATGGTGTCAACTGGAAGTCATGGAGAGGGTACAACTACAGCTGCAAGGTTTCTGAGATGAAGGTGCGGCTCATCTAGCTTCCCACACAGGGAGCACCCCTCCCAGACTCTTCCATCTTCACTGCTAGCTAAGGATGGAGTGTGCCCACCCACCCTGCTCTGCCCACTGCTCACACTCCACACAGCCCATGGCCTCTGACCTAGCTTTTTTCACATCCCTATATTCTCACCACAAAGGAAAAAAATGCATTTTCAAAAGGTGCTTGTTCTCTGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026835:ENSMUST00000028179:8
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)
A:
NA
C2:
PF0014713=Fibrinogen_C=PD(38.0=97.6)
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:
GGCAAGCATGACTTTGCCAAG
R:
GATGAGCCGCACCTTCATCTC
Band lengths:
342-1766
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