MmuINT0060135 @ mm10
Intron Retention
Gene
ENSMUSG00000027249 | F2
Description
coagulation factor II [Source:MGI Symbol;Acc:MGI:88380]
Coordinates
chr2:91628322-91628833:-
Coord C1 exon
chr2:91628660-91628833
Coord A exon
chr2:91628504-91628659
Coord C2 exon
chr2:91628322-91628503
Length
156 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGC
5' ss Score
7.16
3' ss Seq
GTCCTTCTCTCTCCCTAAAGCTT
3' ss Score
9.77
Exon sequences
Seq C1 exon
ATATGAGCGGAATGTTGAAAAGATCTCCATGCTGGAAAAGATCTACGTCCACCCCAGATATAACTGGCGGGAGAACCTAGACCGCGATATCGCTCTGCTCAAGCTAAAGAAACCTGTACCCTTCAGTGACTATATTCACCCCGTGTGTTTGCCAGACAAGCAGACAGTAACCAG
Seq A exon
GTCAGCACTAGGGTCTCAGTTGTGATTTGGCCTGGGCTCTGAACCTTGGGGCCTGACAATCATTTGCAGGGTTCAGTTCCATGGTATAAATGCAAAAGTCATTTTCTAGAAGGCTGTCAGGGACAATTCTCATCAGGTCCTTCTCTCTCCCTAAAG
Seq C2 exon
CTTGCTCCGGGCTGGTTATAAAGGGCGGGTGACAGGCTGGGGCAACCTTCGGGAGACATGGACAACCAACATCAATGAGATACAGCCCAGCGTCCTGCAGGTGGTGAACCTGCCCATTGTAGAGCGGCCAGTGTGCAAGGCCTCCACCCGGATTCGAATTACTGACAACATGTTCTGTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027249:ENSMUST00000111335:11
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:
PF0008921=Trypsin=FE(23.2=100)
A:
NA
C2:
PF0008921=Trypsin=FE(24.4=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:
AACTGGCGGGAGAACCTAGAC
R:
CACACTGGCCGCTCTACAATG
Band lengths:
248-404
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