MmuINT0064332 @ mm10
Intron Retention
Gene
ENSMUSG00000033860 | Fgg
Description
fibrinogen gamma chain [Source:MGI Symbol;Acc:MGI:95526]
Coordinates
chr3:83007724-83008197:+
Coord C1 exon
chr3:83007724-83007982
Coord A exon
chr3:83007983-83008152
Coord C2 exon
chr3:83008153-83008197
Length
170 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
TCTTTGTTTTTCTCCAACAGTAT
3' ss Score
9.64
Exon sequences
Seq C1 exon
AGAGCACGAGTGAGAGCCAGAATGAGCAGAAAGAGCTCACATTTCTGGTAAAGAGACCCTGTGACCAGTTCCAGCCACCCTTAGTCCCGCCCAGACTGAGAGCTCACATAAAGGACCAAGGAGAAGCCCAAGAGGTCACAGTGCTGGCTGTAAAGAGCTGGGAGCACCTGGTCACCCAGACACCATGAGTTGGTCTTTGCAGCCCCCGAGTTTCCTTCTTTGCTGCCTGCTTTTACTGTTCTCTCCAACGGGCCTGGCA
Seq A exon
GTAAGTGTCCTTCCGAAGCCATACTGTTTTATTATTAAAACGTTTTTATAAAGGGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGACATGACTGGGACCAGTAGCAAAATATCTTTGTTTTTCTCCAACAG
Seq C2 exon
TATGTGGCTACCAGAGATAACTGTTGCATCCTAGATGAGAGATTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033860:ENSMUST00000048486:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF087025=Fib_alpha=PU(8.3=80.0)
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:
TGGTAAAGAGACCCTGTGACCA
R:
TGCAACAGTTATCTCTGGTAGCC
Band lengths:
242-412
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