MmuINT0060134 @ mm9
Intron Retention
Gene
ENSMUSG00000027249 | F2
Description
coagulation factor II [Source:MGI Symbol;Acc:MGI:88380]
Coordinates
chr2:91468817-91469475:-
Coord C1 exon
chr2:91469308-91469475
Coord A exon
chr2:91468991-91469307
Coord C2 exon
chr2:91468817-91468990
Length
317 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
CTCTGTTGGGGTCTGCACAGATA
3' ss Score
5.31
Exon sequences
Seq C1 exon
GCAGGTGATGCTTTTTCGGAAGAGTCCCCAAGAGCTGCTGTGTGGGGCCAGCCTTATCAGTGACCGATGGGTCCTCACTGCTGCCCACTGCATTCTGTACCCACCCTGGGACAAGAACTTCACTGAGAATGACCTCCTGGTGCGCATTGGCAAGCATTCCCGAACCAG
Seq A exon
GTATGAAGCAAATGCCTGCTGGTGATTGGCTGGGTTCTGAGTGCTCATCGGGGGCTCTGGAGGCTCTGGGGTACATGGGACCCACAAGTATGAGCTTTCAGCATCCTCACTGGGCAAGCCCGTATGGCCAGGCCCTGGCCCACTCCAGACAGGAGAACATGGTCCAGGTGGAAGTCTCTTTAAATTGTGACTATTGGAGCAGTACATGTAGCATGTGCCTATCTCTGTGGGCCCACATGACTCAGAAGACTGTGTGTGACCGTGCTCAGTTAGCTGAGGATCTCATGAGTGGTTCTTCTCTGTTGGGGTCTGCACAG
Seq C2 exon
ATATGAGCGGAATGTTGAAAAGATCTCCATGCTGGAAAAGATCTACGTCCACCCCAGATATAACTGGCGGGAGAACCTAGACCGCGATATCGCTCTGCTCAAGCTAAAGAAACCTGTACCCTTCAGTGACTATATTCACCCCGTGTGTTTGCCAGACAAGCAGACAGTAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027249-F2:NM_010168:10
Average complexity
IR-S
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(22.4=100)
A:
NA
C2:
PF0008921=Trypsin=FE(23.2=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:
TGCTTTTTCGGAAGAGTCCCC
R:
CTGGTTACTGTCTGCTTGTCTGG
Band lengths:
334-651
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: