MmuALTA0018796-2/2 @ mm9
Alternative 3'ss
Gene
ENSMUSG00000064043 | Trerf1
Description
transcriptional regulating factor 1 [Source:MGI Symbol;Acc:MGI:2442086]
Coordinates
chr17:47485599-47490867:+
Coord C1 exon
chr17:47485599-47485805
Coord A exon
chr17:47490646-47490681
Coord C2 exon
chr17:47490682-47490867
Length
36 bp
Sequences
Splice sites
5' ss Seq
GCTGTAAGT
5' ss Score
8.56
3' ss Seq
AACCCTAATTTCCTTTTCAGGAC
3' ss Score
10.44
Exon sequences
Seq C1 exon
ACCAGCGAAGAGGAAGAGGAGGCCGAGGAGGAAGAAGAGGACCCAGAAGAAGATAGGAAATCCATAAAAGAAGAGGAGAGTGAAGTGGCCAAGTCTCCAGAGCCACCGCCTGCCCCTGCCCTGGCTCCCACTGAGGGGCCACCCATGCAGGCTGTTGGCCAACAACCATCAGGCAACTTCATTTGTGAAATGCCCAACTGTGGGGCT
Seq A exon
GACTGTAGATGTCATGTCGCTCCCTTTCTTCCTCAG
Seq C2 exon
GTGTTCAGCTCCCGACAGGCACTGAACGGTCACGCCCGCATCCACGGCGGCACCAACCAGGTGGCTAAGACCCGAGGTGCCATCCCCTCTGGGAAGCAGAAGCCAGGTGGCACCCAGAGTGGGTACTGCTCAGTGAAGAGTTCACCATCTCACAGTACCACCAGTGGAGAGACGGACCCCACCACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000064043-29-20,29-19-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.841 A=NA C2=0.952
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCCAACAACCATCAGGCAA
R:
GGGTCTTAGCCACCTGGTTGG
Band lengths:
124-160
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: