MmuINT0026964 @ mm9
Intron Retention
Gene
ENSMUSG00000073418 | C4b
Description
complement component 4B (Chido blood group) [Source:MGI Symbol;Acc:MGI:88228]
Coordinates
chr17:34872349-34872820:-
Coord C1 exon
chr17:34872681-34872820
Coord A exon
chr17:34872553-34872680
Coord C2 exon
chr17:34872349-34872552
Length
128 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGA
5' ss Score
1.65
3' ss Seq
TCCCTGTTTCCTGTCCCCAGGTG
3' ss Score
13.57
Exon sequences
Seq C1 exon
GTCTGTGTGTAGCCAAGCCAACTCGTGTTCGAGTGTTCAGAAAATTCCACCTGCACCTGCGCCTGCCCATCTCCATCCGCCGCTTTGAGCAGTTTGAATTACGGCCTGTTCTTTACAACTATCTGAATGATGATGTGGCT
Seq A exon
GTGAGACCGTAGGGGAGCCTGAGCATCCAGGGTGGGCATAGGGAGGGGTGCAAACAGGGACAGGTCAGGTCAGGCAGTGGACCTGATCCAATTAGGAATCTCTGGCCATCCCTGTTTCCTGTCCCCAG
Seq C2 exon
GTGAGTGTCCATGTGACCCCAGTTGAGGGGCTGTGCCTGGCTGGTGGTGGAATGATGGCCCAGCAGGTGACAGTGCCAGCAGGTTCTGCCCGGCCTGTGGCCTTCTCTGTGGTACCCACAGCTGCTGCCAACGTGCCCCTGAAGGTGGTGGCTCGAGGGGTTTTTGATTTAGGGGATGCTGTGTCTAAGATTCTCCAAATTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000073418-C4b:NM_009780:20
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0020717=A2M=FE(51.7=100)
A:
NA
C2:
PF0020717=A2M=PD(4.5=5.9)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAGCCAAGCCAACTCGTGTTC
R:
TACCACAGAGAAGGCCACAGG
Band lengths:
245-373
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: