MmuINT0026968 @ mm9
Intron Retention
Gene
ENSMUSG00000073418 | C4b
Description
complement component 4B (Chido blood group) [Source:MGI Symbol;Acc:MGI:88228]
Coordinates
chr17:34871077-34871520:-
Coord C1 exon
chr17:34871311-34871520
Coord A exon
chr17:34871153-34871310
Coord C2 exon
chr17:34871077-34871152
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-C4b:NM_009780:24
Average complexity
IR-C
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
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: