MmuINT0060143 @ mm10
Intron Retention
Gene
ENSMUSG00000027249 | F2
Description
coagulation factor II [Source:MGI Symbol;Acc:MGI:88380]
Coordinates
chr2:91630153-91630826:-
Coord C1 exon
chr2:91630509-91630826
Coord A exon
chr2:91630267-91630508
Coord C2 exon
chr2:91630153-91630266
Length
242 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGC
5' ss Score
8.02
3' ss Seq
CCACTGCCGGGTCTCTACAGAGG
3' ss Score
6.03
Exon sequences
Seq C1 exon
GCCAGGAGGGCCGTACCACTGTGGTGATGACTCCTCGCTCTGGAGGTTCCAAGGACAATCTGTCACCTCCACTGGGACAGTGCCTCACTGAGCGTGGCCGACTATACCAGGGGAATTTGGCTGTGACAACACTTGGGTCCCCCTGCCTGCCCTGGAACAGCTTACCAGCCAAGACCCTGAGCAAGTACCAAGACTTCGACCCCGAGGTGAAACTCGTGGAAAACTTCTGCCGCAACCCAGACTGGGATGAGGAGGGCGCATGGTGCTATGTTGCGGGGCAGCCTGGCGACTTTGAATACTGCAACCTCAACTACTGCG
Seq A exon
GTGAGCGGAGCTCATAGAGCAGGGCAGGGGCAAGGATTGAAAACAAGTGGGTTCATTACAGCCTTACAGAAACCTGGCTAGGGGTAGGTCCTATTCTTGTTTCATAGATGAGTAGACGGAGGCCCTGAGAAATTGTTGGCTGGCAGGTGTGCCTAGACTCTTAACCTCGGAGTCAAACGCCCTCCAATGCCCCTGGGGTCTTGGGAAGGTCTGAGGTCCCAGCCACTGCCGGGTCTCTACAG
Seq C2 exon
AGGAGGCGGTGGGAGAGGAGAACTATGATGTGGACGAGTCCATCGCGGGACGCACCACCGATGCGGAGTTCCACACCTTCTTCAATGAGAAGACCTTCGGCCTTGGGGAGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027249:ENSMUST00000111335:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.131 A=NA C2=0.026
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PD(0.1=0.0),PF0005113=Kringle=WD(100=73.8)
A:
NA
C2:
PF093965=Thrombin_light=PU(40.8=51.3)
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:
GGCCGACTATACCAGGGGAAT
R:
GAAGAAGGTGTGGAACTCCGC
Band lengths:
306-548
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