MmuINT0060095 @ mm10
Intron Retention
Gene
ENSMUSG00000021492 | F12
Description
coagulation factor XII (Hageman factor) [Source:MGI Symbol;Acc:MGI:1891012]
Coordinates
chr13:55420347-55420871:-
Coord C1 exon
chr13:55420649-55420871
Coord A exon
chr13:55420484-55420648
Coord C2 exon
chr13:55420347-55420483
Length
165 bp
Sequences
Splice sites
5' ss Seq
TCGGCAAGT
5' ss Score
4.02
3' ss Seq
TGTCCCCCACCCGACTGCAGGCC
3' ss Score
7.62
Exon sequences
Seq C1 exon
ACTCGACCGATCATCAGACTTCTCTGTCCAAGACCAACACGATGGGCTGCGGACAGAGGTTCCGCAAGGGACTGTCCTCGTTCATGCGCGTGGTGGGCGGACTAGTGGCTCTGCCTGGGTCGCACCCCTACATCGCTGCACTGTACTGGGGTAACAACTTCTGCGCGGGCAGTCTCATCGCCCCCTGTTGGGTGCTGACCGCGGCTCACTGCCTGCAGAATCG
Seq A exon
GCAAGTGCCACCCTCGGTGACCCCCTAGACCGCTCCTACCGTACCCGCACCCTACTCTTTCCCTGCCCGCCATTCTTGAGCTCCCTCGAGGGGTTGGAAACTAAGGCACCCCCAGAGCATTTGTAGCCGGTCTGAGCCTGCTGCCTGTCCCCCACCCGACTGCAG
Seq C2 exon
GCCAGCGCCCGAGGAACTGACAGTGGTACTTGGTCAAGATCGCCACAACCAGAGCTGCGAGTGGTGCCAGACTCTGGCTGTGCGCTCCTACCGCCTTCACGAGGGCTTCTCCTCCATCACCTACCAGCACGACTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021492:ENSMUST00000021948:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.133 A=NA C2=0.043
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(18.6=58.7)
A:
NA
C2:
PF0008921=Trypsin=FE(19.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
GTCCAAGACCAACACGATGGG
R:
GGTTGTGGCGATCTTGACCAA
Band lengths:
248-413
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