MmuINT0063650 @ mm9
Intron Retention
Gene
ENSMUSG00000047730 | Fcgbp
Description
Fc fragment of IgG binding protein [Source:MGI Symbol;Acc:MGI:2444336]
Coordinates
chr7:28888571-28890227:+
Coord C1 exon
chr7:28888571-28889187
Coord A exon
chr7:28889188-28889683
Coord C2 exon
chr7:28889684-28890227
Length
496 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
ACGTCCTCCCCGCCCCACAGGTG
3' ss Score
11.3
Exon sequences
Seq C1 exon
AGATCACCTGCCCTGACAACAGCCACTATGAGCTCTGTGGCCCACCCTGCCCAGCCAGCTGCCCACCCCCTGCACGACACACAGCCCCAACTGTATGTGACGGGCCCTGTGTGGAGGGATGCCAGTGTGACGAGGGCTTCGTCCTGAGTGCTGATCAGTGTGTTCCCCTGGATGGTGGCTGTGGCTGCTGGGTCAATGGCACATACTATGAAGCAGGCACCGAGTTTTGGGCTGATACCACCTGCTCTAAGAGGTGTCATTGTGGACCTGGAGGTGACTCCTTGGTCTGCAAGCCTGCCAGCTGTGGGCTGGGTGAGGAGTGTGCCTTGTTGCCCTCTGGAGAGATCGGCTGCCAACCTACAAGCATAACTGAATGCCAAGCCTGGGGTGATCCCCATTACACCACCCTAGATGGGCACCGGTTTGACTTCCAAGGCACCTGCGAGTACCTGCTGAGTGCACCCTGCCATGAGCCACCCACAGGGACTGAATACTTCAATGTCACCGTGGCTAATGAGCACAGGGGCAGCCAGGCTGTCAGCTACACACGAAGTGTCACTCTGCAGATCTATGGCCTCAGCTTGACCCTCAGTGCCCAATGGCCCAGGAAGCTACAG
Seq A exon
GTGAGTGGGCTGTGGGCCCCACAGAATCCATTCCAGTCTCTGGTGTACAGAGCATCTTTCCCAGCATGGCAGGAGTGTGAGACCGGTTCAGCTTAGAGCCTGTGGGACCAGGAAGACTGGAGGCAGTGGTTTCCCCAGGCTCAGCCTTCCAGTATTCCTCTGTAGGGTAGATTGTTAAAAGGTACCTGCTTAAGGGTAGCACAAAGAGCCAAGGATGTGGTCTGATGGTGGTGCTCCACTTCTGCTAATTCAGCTGTCAGAGACTGAGGTACAACTGCTGCAGAGACTTGGAGCAGCCTAGGCTACGATAATTGTCCCTTCTTACAGGGCAACAAGCAAAATATAAGCAAAAACAAAAAGGAGTCCATAGCTCCGTGTCTCTTTACTTTTACAACAGCAGGGGAAGTAACCTACTTTGGATACCATAGCTTATAAACCATGGTACATATGCGAAACTCTCAAGTGACTCCCCTCTCACGTCCTCCCCGCCCCACAG
Seq C2 exon
GTGAACGGAGAGTTCGTGGCTCTGCCCTTCCATCTGGACCAGAAACTCAGTGTTTACATAAGTGGAGCAGATGTAGTAGTGAACACTGCTTCGGGGGTCTCCCTGGCTTTTGACGGAGACAGTTTCGTGCGCCTGCGCGTGCCCGCTGCCTATGCTGGCACCCTCTGTGGCCTGTGCGGCAACTACAACAAGAATCCCAACGATGACCTGACTGCAGTGGGCGGGAAACCTGAGGGCTGGAAAGTGGGCGGAGCTCCAGGCTGTGACCAATGCGAGCCTGAGCCTTGCCCAAAACCCTGCACACCTGAGGAACAAGAACCCTTCCGCGGTCCCGACGCCTGCGGCATTATCACGGCCCCCGAAGGCCCACTAGCGCCCTGCCACAGCCTTGTGCCACCCACGCAGTACTTCGAGGCTTGCTTGCTGGACGCCTGTCAGGTTCAGGGACATCCAGGTGGCCTCTGTCCTGCTATAGCCACCTATGTGGCAGCATGTCAAGCTGCTGGGGCCCAACTTGGAGAATGGAGAAAGCCAGACTTCTGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047730-Fcgbp:NM_001122603:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.010 A=NA C2=0.049
Domain overlap (PFAM):
C1:
PF087426=C8=PD(0.1=0.0),PF0182612=TIL=WD(100=27.2),PF127142=TILa=WD(100=28.2),PF0009420=VWD=PU(51.0=38.8)
A:
NA
C2:
PF0009420=VWD=PD(47.8=41.2),PF087426=C8=WD(100=41.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAATGGCCCAGGAAGCTACAG
R:
GCGGAAGGGTTCTTGTTCCTC
Band lengths:
348-844
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: