MmuINT0064340 @ mm10
Intron Retention
Gene
ENSMUSG00000033860 | Fgg
Description
fibrinogen gamma chain [Source:MGI Symbol;Acc:MGI:95526]
Coordinates
chr3:83014138-83015049:+
Coord C1 exon
chr3:83014138-83014307
Coord A exon
chr3:83014308-83014834
Coord C2 exon
chr3:83014835-83015049
Length
527 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGC
5' ss Score
7.16
3' ss Seq
GTTTTATTATATATTCATAGGCT
3' ss Score
6.62
Exon sequences
Seq C1 exon
GTGGTACTTACTCAAAATCATCTACTACTAATGGTTTCGACGACGGCATTATTTGGGCGACCTGGAAAAGCCGCTGGTATTCTATGAAGGAAACCACCATGAAGATAATTCCCTTCAACAGACTCTCCATCGGAGAAGGACAGCAGCATCACATGGGGGGATCCAAACAG
Seq A exon
GTCAGCGTGGATCATGAAGTTGAAATTGAATACTGATCAATCATCTGCCTGGAAGTTTTTAAAATAGATATAAAAAATTAACTATTAACTCCTATTGGCCTGTACAGAGTTCCAATGATTTCCTCAATTTTTCTTTACTCTATTTATTAATTTTTGTCTTTCTTAACATGATACCTAGCCTTAAATGGAAATTAAAATCTATTTGAACCGTATTTCTAAATTACTTGAGTCAAAGTTATTAAGTATTGTTTATTCGAAGAGACAGTTTGTTTGACCTTTCCTCTAAACATTAAAAGTAAAACTACTGTTCTTTGTTTACTTTATAATCAGCTGTAATTATTGTTTTGTTTTATTATTTCTTGAGTATTTTTAGTATATACTAATAAAATAGGAGAAAATTATAGAACTTGACCTGTATATTTTTCTCATGTTATTTTATCTCGACATCATTAATATTTAATTCTTTTTTACGAAATAAAACAAGTTATATTTTTTAATATATCTTTTGTTTTATTATATATTCATAG
Seq C2 exon
GCTGGAGACGTTTAAAGAACATTTCAAAGCTGGTTTGCTTTTTTAAAGGACTTTATCCAAGCAGAGAACTATACTATTTTTCCTATGGGACAATGGACTTTCAGGACCTCACTTCATTTTCAGAGTTAATGGGATCCATGGTGCAAACTCCATTAGCAGTTTTATGCTGGCGATAATTTATCTACGTGCATTGCAATAAACATTTCGTTTCCTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033860:ENSMUST00000048486:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.190 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=PD(15.8=66.7)
A:
NA
C2:
NO
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:
ACTAATGGTTTCGACGACGGC
R:
CGAAATGTTTATTGCAATGCACGT
Band lengths:
351-878
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