MmuINT0060080 @ mm9
Intron Retention
Gene
ENSMUSG00000031645 | F11
Description
coagulation factor XI [Source:MGI Symbol;Acc:MGI:99481]
Coordinates
chr8:46335411-46337531:-
Coord C1 exon
chr8:46337372-46337531
Coord A exon
chr8:46335521-46337371
Coord C2 exon
chr8:46335411-46335520
Length
1851 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
CCATTTTTGTTTGTATTCAGTAA
3' ss Score
7.04
Exon sequences
Seq C1 exon
CTTGCAGCAAAGATGTGTACGTGAACCTAGACATGAAGGGCATGAACTATAACAGCTCTGTCGTGAAGAATGCTCGAGAATGCCAGGAGAGATGCACAGACGATGCCCACTGCCAGTTTTTCACATACGCAACAGGGTATTTTCCCAGTGTGGACCATCG
Seq A exon
GTGAGTGAGCGGGAGTCCGAGCCGCTGGATATAAGCCTGCCCAGGGAAAGAAAACCGCTGGTTCCGTAGGTATTTTCATCAATTTGAAGCCTAAACTTCTTTTTTTAAACCCCAAGATATTTGCATAACAACAATCACTGTTTTGTCATGAAAAGGTCATAGCGTGTCTAACACACATTTACGACATATTCAAATTTCAGAACTGGAGGATGGCTCGGTGGGTGCGTAAACACACTGCTTATGCAGGGACCCTGAGTTTGGATCCCAGCATGCACATAAAAGCCAGATATGGGTGTGTATGCCTTTAACCCCAGTGCTTGGGACATGGGCACGGGACAGAGGGAGGATGGTTGGAGCTCACTGGTTAGCTCCAGGCCTTTATTATTATTATTATTATTAAATATTGTCTTTATTTACATTTCAAATGTTATCTCCTTTCCCTGCCCCCCCCCCAACCCCCTCTCCCATCCCCCTCCCATTTCTACTAGGTTGTTTACCCACACACCAACCCACTCCTGCCTCCCTGCCCTGGCATTCCCCTACACTGGGGCATAGAGCCTTCACAGGACCAAGGGACTCTCCTCCCATTGATGCCTGACAAGAACATTCTCTTTAGCTCCAGGCTTAGGGAGAGATCCTGTCTGGAGGGGAAAAGACAGAGAGGTCATAGGGCAGGAACTCTAACACCCCCCCCCCACTTGGACTTCCTATTCTCACTTGCATACCCACACCCCCACACCCCACACACACCATATACAATACATACAGCGTGGCCTCACAGATTCTGTGTATGTTGTAAAGCATACACAAGCTTACCCTATCTAACTTCAAAAGGCATTACATTTTCACGCTTGTGGTTCTGAGAGCTCGGTTTGCTTGGCCATGCTCTTCCCAGTCTAACAAATGTCCTAACCTAAAAATCATCAAAACTTAAAGTTTGTTTCTCTATCTACCTACATGTACAGTTCTGTCCCTTACCCAAGACGAAGTCATTGGAACCCATGTGCAAAGTTTTCTCCTGTTTGATGTGGGATTCCAAACTCCTCCAAGGAAGAAATCTGTTATATAAACTAACGAGAGGGAATGACTAAATCTGCATCTTCAGTTTAAATTGTTGTTAGAAAAGTATATGACTTGTTCTTTTACAAACATTTTAATTTTGTGTGTGTGTGTGTATGTTTATGTATGTGTGTGCCTGTGCGTTTAGACACACACGTGTGCAGATAACTATATAGCCAGAAGAGACATCTCTCAATCTCTCAAGGTTCATTTTTAGACTTAGGAATCTTTGACATTATCTAGATTTGCACAGTAAACAACAGGTATGTGGTAGTTGGATTTTAACATTGGCTATTCCTACTTCACTTTCCATAATTCTGGGGGGGAAAAGATGAATGGGAAGTGAAACATTAAAGATGTCTTTTAGAATGAATAATAAAAAAATGGAAAGTAGCCTTCTATGGCTCTCTTTAGCTCTCCTCAGAGGACATGTTTTATGTCTTAGACTTCACAGAATGCCAACTGCAGGCTAGGAAAATGTTCCTAGGGCTTACACAAAAGCGTATTTGGAGGGCTAACGTGAACCCGTTCACACAACCACCTCACACCACATCAGGTCTTCTGTGTTGTCCTCTCACTGATGAGATAACATTATTCCTGAGTCCACAGAGCCTCCCTGTGGTTAGAAGAGCTGCCAGGACTCATGCAGCCACCTGGCTCTGCAGGTGAACACTCCTGGGCAGTTCCTCTGTTATTACAGTCATTTCCCCCCTGCGGACCGTAACTTCTTATCCTCTCGTGTTTTTATACACTTGGAAAGAACAATATTTTGCCATTTTTGTTTGTATTCAG
Seq C2 exon
TAAAATGTGTCTTTTGAAGTACACCCGAACGGGGACGCCAACCACAATAACGAAGCTCAATGGCGTGGTATCTGGATTTTCACTGAAGTCCTGTGGACTTTCAAACTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031645-F11:NM_028066:5
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:
PF0002421=PAN_1=PU(61.9=96.3)
A:
NA
C2:
PF0002421=PAN_1=PD(36.9=81.6)
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:
CTTGCAGCAAAGATGTGTACGTG
R:
CCAAGTTTGAAAGTCCACAGGA
Band lengths:
270-2121
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: