MmuINT0032444 @ mm10
Intron Retention
Gene
ENSMUSG00000024670 | Cd6
Description
CD6 antigen [Source:MGI Symbol;Acc:MGI:103566]
Coordinates
chr19:10789341-10790670:-
Coord C1 exon
chr19:10790569-10790670
Coord A exon
chr19:10790244-10790568
Coord C2 exon
chr19:10789341-10790243
Length
325 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCT
5' ss Score
6.52
3' ss Seq
GATTCTCTTGTCCCCCACAGGAC
3' ss Score
10.98
Exon sequences
Seq C1 exon
GGCCCTCAGCCGATGACAGCTCCAGCACCTCATCCGGAGAGTGGTACCAGAACTTCCAGCCACCACCCCAGCATCCTCCAGCAGAACAGTTTGAATGTCCAG
Seq A exon
GTAGCTGGGGTCGGGGGTGGGCCATAGAGGATGTGGGTAGGATGGAGAAATATTCGGAAGTTTCTGTGAGAGGAAGTGAGCTTACTGTCAGTGGAGGCATTCAAGCAGAAACTGCTCGTTGGCCACGAGCACCAGCCTGGGAACCTCAGCTCTGTACTAGACAAGGCTCTGGCTGGAGGCAGCAGTAAACAAAAGGATAAGATGGTTTCAGATGGTGCCTCAGGAACTGGGGTAGGGGATGGACACAGGCCGGCTCACTCTCACTTTCTCATGGCAGGGGTAGCCACTGTGTCCCCTACTGACCTGATTCTCTTGTCCCCCACAG
Seq C2 exon
GACCCCCTGGCCCCCAAACAGACTCCATTGATGATGATGAGGAGGATTACGATGACATCGGTGCAGCCTAGCCTGGGTCCCCGAGGCTCCTGGGTGGCCCCTCCCTCTGCTCTCTTGTTCTAGCCCCTAGCAGAGGTGGAAGGGTGGGCATTCTCCCAGCCCCTCATCCTCCACCCATTGATTAACCTGCAGGAGCCCGGAACAGAAGACAAAGCCAGTGGTGTGAGAGCTGAGTCCTGGGTTGAACAAACAGGGTCTGGCCACTTCTTGGGAGTGGTGAAGGGTCATGCTGGGTGACCCTGAGGCCTTATCTCACTCCGTGTCTGGCACTTTGATCCTAAGCCTCAGGAAGCTGCTGAAGGGGCTGAGTAGCCCACCCACTGCTGAAATACAGGCCCTGGGCCAGGGGCTGCCATTATCACCCAGGAAGTCAGCGATGTCTCAATACAACCTGGGGCCTCAATCAATCAGAGTAGCAGCCGCTTTAGCACGGGCATGGCCTCCCTGGGCACTGTCACCTAAGAGTAACCATGGCGAATACATGCTTGCTTCCAGAGGTCTCTGAGTCCACCACAGGCACTAGCTGGACTCCTTTCTCTATCCCTAGACAATTATTCTAATTCCTTGGGCTTTATAAGAGCATCCCTGCCCTGCCTGAGTCAGGGGATCCACAGCCCCATTGGGACAAGAATGCAGGGACCTGTTCTGGAGGGCTAGAGGGCACCAAAAGCTCCGAGTCCCCACAGGTCCCCTTGGGTTGACAGGAACACTTTGGGAGAGTGTGGTTATTGCAGCCAAGACCTTAAACAGGTCCTCCCCACAGCGTCAGAGAACTGGAGGGTCCCAGCCAGGCTACAGTGGCCTGTCCTGAGTTCCAGAGATTAAACGATTACTGAGTGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024670:ENSMUST00000080292:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
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:
CAGCATCCTCCAGCAGAACAG
R:
AGATAAGGCCTCAGGGTCACC
Band lengths:
347-672
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