MmuINT0060137 @ mm9
Intron Retention
Gene
ENSMUSG00000027249 | F2
Description
coagulation factor II [Source:MGI Symbol;Acc:MGI:88380]
Coordinates
chr2:91465477-91465929:-
Coord C1 exon
chr2:91465859-91465929
Coord A exon
chr2:91465731-91465858
Coord C2 exon
chr2:91465477-91465730
Length
128 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGC
5' ss Score
9.55
3' ss Seq
ACCCCACTTTTCTTCCTCAGAGC
3' ss Score
10.89
Exon sequences
Seq C1 exon
GCTTCAAGGTGAATGACACCAAGCGAGGAGATGCTTGTGAAGGTGACAGTGGAGGACCTTTTGTCATGAAG
Seq A exon
GTATGCTTCTTTAAAGGCCAGGGGTTGGTGGATAATCTTCCAAAGTCAGAGAAGGTTGGGGGCCAGGAATTTGTTTTCAGAAACAGCACTTGGACCTGACTATTGGAAACCCCACTTTTCTTCCTCAG
Seq C2 exon
AGCCCCTTTAACAACCGCTGGTATCAAATGGGTATTGTCTCATGGGGTGAAGGATGTGACCGGAAGGGGAAATACGGCTTCTACACGCATGTGTTCCGTCTGAAAAGGTGGATACAGAAAGTCATTGATCAATTTGGATAGGTGTGTGGGTGGGTAAAGGACCTACACTATGGAATCCTCATTGCAAAATCACAGAAACCAATCAAATTACTTTTGTGGTTTGTTTCTGTTCTCAATAAAAGTGATTGTCAGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027249-F2:NM_010168:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(9.2=100)
A:
NA
C2:
PF0008921=Trypsin=PD(14.8=78.7)
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:
GTGAATGACACCAAGCGAGGA
R:
TGAGGATTCCATAGTGTAGGTCCT
Band lengths:
244-372
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: