MmuINT0064512 @ mm9
Intron Retention
Gene
ENSMUSG00000026841 | Fibcd1
Description
fibrinogen C domain containing 1 [Source:MGI Symbol;Acc:MGI:2138953]
Coordinates
chr2:31689303-31689968:-
Coord C1 exon
chr2:31689809-31689968
Coord A exon
chr2:31689440-31689808
Coord C2 exon
chr2:31689303-31689439
Length
369 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
GATGTGGCTCCTTGTCACAGGCT
3' ss Score
6.64
Exon sequences
Seq C1 exon
CTTCTCTCTGAGAGTCAAGGTCACATGGCTCACCTGGTGAACTCAGTCAGTGATGTCCTGGAGGCTCTGCAGAGGGAGCGGGGCCTAGGCCGGCCCCGTGTCAAGGCTGACCTTCAGAGGGCCCCTTCCCGGGGAGCCCGGCCCCGAGGCTGTGCTAATG
Seq A exon
GTGAGTGAGATATGCTTACTTTTGCTGGGTGGCTCTGGTGCCCAGTTTCAGGGAGATGGAAGGTTGTAGTGAGGGCTTTCCCTCATTCTCTATCACCTGTCCTTTGTCTCTCATGGACAAGGACAGGCTGCTACTATAGAAAAGGGACTTCCTGTGGCCAGGTGACTCAGAGCCTGACCTGTTGAGCTGTAAGCCCATTTTCCAGATGAGGAGAGCAAGGCCTCAAAGATTTGCCTGGGACCGAGGGCTTGTGCTCTTGACCCCCTGTGGAGAGACTTGTCAGAGATTGCCAGGGATCTCTTTGGAGGGAAGGGATGACAGAATATAGTGTCTGGGAGACTGTCACCCTGATGTGGCTCCTTGTCACAG
Seq C2 exon
GCTCTCGGCCGCGGGACTGCCTGGATGTTCTCCTGAGTGGACAGCAGGATGATGGTGTCTACTCTATCTTCCCCACTCACTACCCAGCTGGCTTCCAGGTCTACTGTGACATGCGCACTGATGGTGGAGGCTGGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026841-Fibcd1:NM_178887:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.389 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF104734=CENP-F_leu_zip=PD(38.0=55.6)
A:
NA
C2:
PF0014713=Fibrinogen_C=PU(19.7=93.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTCTCTGAGAGTCAAGGTCACA
R:
GTCCAGCCTCCACCATCAGT
Band lengths:
294-663
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: