MmuALTD0010972-2/2 @ mm10
Alternative 5'ss
Gene
ENSMUSG00000029913 | Prdm5
Description
PR domain containing 5 [Source:MGI Symbol;Acc:MGI:1918029]
Coordinates
chr6:65855949-65857817:+
Coord C1 exon
chr6:65855949-65856123
Coord A exon
chr6:65856124-65856173
Coord C2 exon
chr6:65857643-65857817
Length
50 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGCT
5' ss Score
6.77
3' ss Seq
CTGTGTTGTACATTGCACAGGTC
3' ss Score
6.42
Exon sequences
Seq C1 exon
GAAGGAGAAAATATTTTCTACTTGGCAGTTGATGATATAGAAACAGATACAGAGCTTTTGATTGGCTACCTGGACAGTGATGTGGAGGCAGAGGAGGAGGAGCAACAAGCTCTGACCATGACCAAAGAAGGCAAAGTTGACCACTCTAAGGGACAGTTGGCAGCTGGAAGTAAAG
Seq A exon
GTACTGCATCTTCGTTTGGTGATCTGAAGGAAGAGACATTGAAGAGGAAG
Seq C2 exon
GTCACCTTGGCTGTGAAGAGGACTTTGCCTGTCCACAGTGTGAATCGAGCTTTCCCAGTGAGGAAGTCCTTACTGAGCACCTTCAGAGCTTGCACCAGAAGCCCACAGGGGAGAAAGAGTTCAAATGCGAGAACTGCGGGAAGAAATTCCCTGTGAGGCAGGCCTTGCAGAGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029913-19-8,20-8-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.439 A=NA C2=0.140
Domain overlap (PFAM):
C1:
PF0085623=SET=FE(33.5=100)
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=49.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTAAGGGACAGTTGGCAGCTG
R:
GCTTCTGGTGCAAGCTCTGAA
Band lengths:
132-182
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