MmuINT0026928 @ mm9
Intron Retention
Gene
ENSMUSG00000015451 | C4a
Description
complement component 4A (Rodgers blood group) [Source:MGI Symbol;Acc:MGI:98320]
Coordinates
chr17:34951737-34952179:-
Coord C1 exon
chr17:34951971-34952179
Coord A exon
chr17:34951813-34951970
Coord C2 exon
chr17:34951737-34951812
Length
158 bp
Sequences
Splice sites
5' ss Seq
AAGGTTCTG
5' ss Score
2.04
3' ss Seq
TGGCACCTCTTTTTTCCCAGGCC
3' ss Score
8.51
Exon sequences
Seq C1 exon
CCTCTGAACCCTTGGAGACTCTGGGCTCTGAAGAAGCTTTGTCCCCAGGAGGCGTGGCCTCCCTCCTGAGGCTTCCCGGAGCTGCGCAGAGCAAACCATGATCTATTTGGCTCCTACCCTGACTGCTTCCAACTACCTGGACAGGACAAAACAGTGGAGCAAACTGTCCCCTGAGACCAAGGACCATGCTGTGCATCTGATCCAGAAAG
Seq A exon
GTTCTGGGTTAAGGGAAAGCAAGAGTCAGAGCCAGGGAGGGCATGAAAGGCAGCCAGGAGCCTAGAGAGAGAAGCTGGGGTCAAGGGTAGGGCGCTGGGAGTACAGTCCTGGCCCAAACAGCAGGAGAGTAGGAACCTTGGCACCTCTTTTTTCCCAG
Seq C2 exon
GCCACGTTCGGATCCAGCAGTTTCGGAAGAAAGATGGCTCTTTTGGGGCTTGGTTACACCGGGACAGCAGCACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015451-C4a:NM_011413:24
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping 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:
TGGAGACTCTGGGCTCTGAAG
R:
CAAGCCCCAAAAGAGCCATCT
Band lengths:
249-407
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: