MmuINT0026968 @ mm10
Intron Retention
Gene
ENSMUSG00000073418 | C4b
Description
complement component 4B (Chido blood group) [Source:MGI Symbol;Acc:MGI:88228]
Coordinates
chr17:34734132-34734575:-
Coord C1 exon
chr17:34734366-34734575
Coord A exon
chr17:34734208-34734365
Coord C2 exon
chr17:34734132-34734207
Length
158 bp
Sequences
Splice sites
5' ss Seq
AAGGTTCTG
5' ss Score
2.04
3' ss Seq
TGGCACCTCTTTTTTCCCAGGAT
3' ss Score
8.34
Exon sequences
Seq C1 exon
CCTCGGAACCCTTGGAGACTATGGGTTCTGAAGGTGCCTTGTCCCCAGGAGGTGTGGCCTCCCTCCTGAGGCTTCCCCAGGGCTGTGCAGAGCAAACCATGATCTATTTGGCTCCTACCCTGACTGCTTCCAACTACCTGGACAGGACAGAACAGTGGAGCAAACTGTCCCCTGAAACAAAGGACCATGCTGTGGATCTGATCCAAAAAG
Seq A exon
GTTCTGGGTTAAGGGAAAGCAGGAGTCAGAGCCAGGGAGGGCATGAAAGGCAGCCAGGAGCCTAGAGAGAGAAGCTGGGGTCAAGGGTAAGGCGCTGGGAGTACAGCCCTGGCCCAAACAGCTGGAGAGTAGGAACCTTGGCACCTCTTTTTTCCCAG
Seq C2 exon
GATACATGAGGATCCAGCAGTTTCGGAAGAATGATGGCTCCTTTGGGGCTTGGTTACACCGGGACAGCAGCACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000073418:ENSMUST00000069507:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.113 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF105694=Thiol-ester_cl=WD(100=43.7),PF076789=A2M_comp=PU(0.4=1.4)
A:
NA
C2:
PF076789=A2M_comp=FE(9.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCTGAAGGTGCCTTGTCCC
R:
GGTGTAACCAAGCCCCAAAGG
Band lengths:
246-404
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