MmuALTA1040562-2/3 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000063972 | Nr6a1
Description
nuclear receptor subfamily 6, group A, member 1 [Source:MGI Symbol;Acc:MGI:1352459]
Coordinates
chr2:38740543-38742961:-
Coord C1 exon
chr2:38742807-38742961
Coord A exon
chr2:38740605-38740607
Coord C2 exon
chr2:38740543-38740604
Length
3 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TGTGAAGTTTTTCTCTCCAGTAG
3' ss Score
4.86
Exon sequences
Seq C1 exon
ATATCAGAAGAAGAAATTGAAAGAATCATGTCTGGACAGGAGTTTGAGGAAGAAGCCAATCACTGGAGCAACCATGGTGACAGCGACCACAGTTCCCCTGGGAACAGGGCTTCAGAGAGCAACCAGCCCTCACCAGGCTCCACACTATCATCCAG
Seq A exon
TAG
Seq C2 exon
GTCTGTGGAACTAAATGGATTCATGGCATTCAGGGATCAGTACATGGGGATGTCAGTGCCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000063972-20-24,20-23,20-22-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.926 A=NA C2=0.091
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTTCAGAGAGCAACCAGC
R:
GGCACTGACATCCCCATGTAC
Band lengths:
108-111
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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