MmuALTD0014762-2/2 @ mm9
Alternative 5'ss
Gene
ENSMUSG00000064043 | Trerf1
Description
transcriptional regulating factor 1 [Source:MGI Symbol;Acc:MGI:2442086]
Coordinates
chr17:47456457-47460611:+
Coord C1 exon
chr17:47456457-47456567
Coord A exon
chr17:47456568-47456627
Coord C2 exon
chr17:47460227-47460611
Length
60 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
AACTGTTCCTCTCACTCTAGGAA
3' ss Score
10.21
Exon sequences
Seq C1 exon
CTAATCCCACCCAAGCCCAGCTCTCAGGGGTTCACCAACAGCGTCGCTGCCACCCCCGCGGCCAGAGACAAGCCAGCCAGCTCGATGTCGGACGACGAGATGCCTGTGCTC
Seq A exon
GTGAGGATGACCCTCTCCCCCCCTCACTCCCCCCAAGGGGCTGCCCCCCGTGCGCCTGCT
Seq C2 exon
GAAATCCCCCGGAAACATCCACCTATCGCCGCCAAAGTTGAGGAGCCCCTCAAGAACCTACCAGAGAAGAAGAAATTCCGGCACCGGCCTGAGCCCCTCTTCATCCCACCACCGCCTTCGTCCTATACTCCCAACCCCACCTCTTACTCGGGGGCCACCCTGTACCAGAGCCAGCTGCGCTCCCCGCGAATCCTCGGGGACCACCTGCTCCTGGACCCCGCCCACGAACTGCCCCCCTACACGCCGCCACCCATGCTGAGCCCTGTGCGCCAGGGCTCAGGGCTCTTCAGCAATGTCCTCATCTCTGGCCACGGCCCTGGAGTGCACCCCCAGCTGCCCCTCACTCCCCTCACGCCCACGCCACGTGTGCTGCTGTGCCGTTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000064043-18-11,19-11-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.744
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTCAGGGGTTCACCAACAG
R:
CTCAACTTTGGCGGCGATAGG
Band lengths:
133-193
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: