MmuINT0060145 @ mm10
Intron Retention
Gene
ENSMUSG00000027249 | F2
Description
coagulation factor II [Source:MGI Symbol;Acc:MGI:88380]
Coordinates
chr2:91629151-91630076:-
Coord C1 exon
chr2:91629950-91630076
Coord A exon
chr2:91629319-91629949
Coord C2 exon
chr2:91629151-91629318
Length
631 bp
Sequences
Splice sites
5' ss Seq
CTGGTGCGT
5' ss Score
8.29
3' ss Seq
TGCACTCTGCTTCCCGTTAGGCA
3' ss Score
7.43
Exon sequences
Seq C1 exon
ACTGTGGCCTGCGGCCTTTGTTCGAGAAGAAGTCGTTGAAAGACACAACCGAAAAGGAGCTTCTTGACTCTTACATAGACGGGCGCATCGTGGAGGGCTGGGACGCTGAGAAGGGTATCGCCCCCTG
Seq A exon
GTGCGTCCTGGACTGATCTACAGGCCTGCCCCACCCACGGCCGCTGCAGGACCTGGCTCCACAGATGACGCTAGCACCCACTCTCTAATTTCCCCCAGAGCTACCTCAGCCAGCTTTGCCATGTCTGCCGAGTAATTGTCAGAGATGAGGCCAAGCGAGCTTACGTGACTCATCCTCAGGCACGCTGCATAGTCAGGACTGTATCCAATTCTGATCTAGAGCTGTGCTAAACTATACGGTCTACCCTGATAGAGCTCTGGTCTTCTACGGCAGCCAAATCAATCCGAGATTTGAGCCCTGGAGGCAACCCTGTCCCACTATCTGTCTTTCTTCCTTTTCTTCCTTCCTTCCTTCCTTTCTTCCTTCCTTCCTTCCTTCCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCATCTTTACTTTTGGGGCGAGGGGAGGTCTTATATAGCAGAGGCTTACTTCGAACTTCTGATGCTCCTGCTTCCACATCCCAAGTGCAAGGATTACAGGCTTGCGACACCATCCTAGCCCAGTACTCTTCATCTAAGAGCCTTTCCCATTTCCAAGGCTGTTAGGGGCTGGGCTCCAGCTCCTAATGCACTCTGCTTCCCGTTAG
Seq C2 exon
GCAGGTGATGCTTTTTCGGAAGAGTCCCCAAGAGCTGCTGTGTGGGGCCAGCCTTATCAGTGACCGATGGGTCCTCACTGCTGCCCACTGCATTCTGTACCCACCCTGGGACAAGAACTTCACTGAGAATGACCTCCTGGTGCGCATTGGCAAGCATTCCCGAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027249:ENSMUST00000111335:9
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:
PF093965=Thrombin_light=PD(57.1=65.1),PF0008921=Trypsin=PU(5.2=30.2)
A:
NA
C2:
PF0008921=Trypsin=FE(22.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCGGCCTTTGTTCGAGAAG
R:
CTGGTTCGGGAATGCTTGCC
Band lengths:
287-918
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