MmuINT0032442 @ mm9
Intron Retention
Gene
ENSMUSG00000024670 | Cd6
Description
CD6 antigen [Source:MGI Symbol;Acc:MGI:103566]
Coordinates
chr19:10865406-10865943:-
Coord C1 exon
chr19:10865872-10865943
Coord A exon
chr19:10865661-10865871
Coord C2 exon
chr19:10865406-10865660
Length
211 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CTTCCCTTTTCCTGGCCCAGGAC
3' ss Score
8.86
Exon sequences
Seq C1 exon
ATTCCCAGCGACACCGGGTCACAGAGGAGGAAGCTCAGCAGAACAGGTTTCAGATGCCACCCTTGGAGGAAG
Seq A exon
GTGAGTCCAGAGCGGGCAGGTCTTGGAGAAGAGAGGCAGGGTGCTGACCTTGCCTCCAAACTCAGTAGCTAAGCTCACCTCAGGATGCATCAGCAGCAACTTCCCTCAACTAGTGTCTCGGACCTAAACATTCCCATAGGTATTAAGTTCTGCTGGGAGCCTAACTTAGAGCTCTCTTGCTTCCATACTTCCTTCCCTTTTCCTGGCCCAG
Seq C2 exon
GACTTGAAGAGCTGCATGTTTCCCACATCCCAGCGGCTGACCCCAGACCCTGTGTGGCAGATGTCCCCTCTCGGGGCTCTCAGTACCACGTGAGGAACAACAGTGATTCCAGCACCTCCTCTGAGGAGGGCTACTGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGCGTTTTATTCTGAGAAGAGTCCCCTCACAGAGCAGCCCCCCAACTTGGAACTGGCTGGCTCTCCGGCAGTGTTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024670-Cd6:NM_009852:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.960 A=NA C2=0.968
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
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:
AGGAGGAAGCTCAGCAGAACA
R:
CTGAAAACACTGCCGGAGAGC
Band lengths:
303-514
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: