MmuINT0032451 @ mm9
Intron Retention
Gene
ENSMUSG00000024670 | Cd6
Description
CD6 antigen [Source:MGI Symbol;Acc:MGI:103566]
Coordinates
chr19:10867318-10868727:-
Coord C1 exon
chr19:10868632-10868727
Coord A exon
chr19:10867435-10868631
Coord C2 exon
chr19:10867318-10867434
Length
1197 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
ACCCTCTCTTCTCTTCCCAGCTC
3' ss Score
10.27
Exon sequences
Seq C1 exon
CCCTCCCTGCTTCAGTGAACCACCAGCAACTGTCTACTGCCAACCAAGCAGGGATCAATAACTACCATCCTGTCCCTATCACCATTGCCAAAGAAG
Seq A exon
GTAGGATGTCACCCATGGGGAAGGCAGGGGGAAGACAGGGAGGGTAGACTCTGGAGGGTCATCACTGCTGAGGCTGAAGTGGCAGCAACAGGAGAGGAGCCCAGGCCAGACTGTGCACAAACTGTGTTGCTTTGAGTTCATAGCCTTTGGCTTAGCAGACAAGTGACCTTCTAACTCAATCTTGTACCAACTCTGGGCTTTTGAGTTCTGGGCAAACGCAAGCCAATGGTTTGAGATGTTGGCTCTCAGAAGAAAGGTTGGCTTTGCTCACTGGCTAGTAGACTTGTGATGTCACTTCTCAAGACACTTCCCAACCAGATGACCAACAGAGTCCATCACTGTCCTCCCAGAACCAGGGCTGGGTGTGTGGCTATGTTGGTAAAGTGCTTAAAACACACAGGCCTTGTGGTTCAATGCTCAGCACCATATAGCCCAGACATGATGCTGCACTCCTGTAATACCAGAACTTTGGAGGTGGAGGCAAGGAGGATCAGCAGATCAGGGTCACCTTGAGTTTGAAGCTAATATGAGCTACCTGAGACCCTATTTTTTCTTTAAAAGAAATAATTTTTTTTTCATTTTCTCTGAGTAAAAGAATTAGGACTAGAGAGATAGCTCCCTCAGTTAGTTAAAGTGCTGGCCTTGCAAAGGTAAGGACATGAATCAATCCCCAGCGTCCATGCAGAAGCCGGGCATGGTGGCACGAGGCTGTAAGCCTAGTGGGGGGGGCAGGGGGGAACCAGGGGGGGGAGCTGAGATGAGCAGACGCTCAGGCCTTGCTAGCCAGCCAGTCTAGCCTAGTCAGCAAGCTCCAGGTCCCAGCAAGAGAACCTATGTGGTGCAGAGCATGGTGGCCAGTGGCACGTGGCTTTAATCCTAGGGCTCAGATTTCAGTGCATTCAAGGCCAGCCCTATTGGCATAGAGAAGGCCAGGCCAGCCAGGGATACACTATCTCCTGGGACTAGTCTCTACACACACACACACACACACACACACACACACACACACACACACAGAGTCACTCACCCTTTAGGACACATAATTTGCCTTTAAAGAGTTTTAAGTTCAATGTCATTGCATTTTTGAAACAAAATTGGTCACTTGCTACTCTGTCCTTGTCCCTGCTACTGGGCCCTCAAACCTTATGCCCATCTTGGGGCTGTACCCTGGCCCCCAACCCTCTCTTCTCTTCCCAG
Seq C2 exon
CTCCTATGCTGTTCATCCAGCCCCGGGTCCCTGCAGACTCGGACTCCAGTTCTGACTCCGACTATGAGCACTATGACTTCAGCTCCCAGCCACCTGTGGCCCTGACCACCTTCTACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024670-Cd6:NM_009852:8
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.114 A=NA C2=0.433
Domain overlap (PFAM):
C1:
PF054546=DAG1=PD(16.4=57.6)
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:
CTCCCTGCTTCAGTGAACCAC
R:
GTAGAAGGTGGTCAGGGCCA
Band lengths:
210-1407
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: