RnoALTA0026950-2/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000013232 | Nr6a1
Description
nuclear receptor subfamily 6, group A, member 1 [Source:MGI Symbol;Acc:MGI:1352459]
Coordinates
chr3:23048036-23050730:-
Coord C1 exon
chr3:23050576-23050730
Coord A exon
chr3:23048261-23048263
Coord C2 exon
chr3:23048036-23048260
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
ATATCAGAAGAAGAGATTGAAAGAATCATGTCTGGACAGGAGTTTGAGGAAGAAGCCAATCACTGGAGCAACCATGGTGACAGTGACCACAGTTCTCCTGGGAACAGGGTTTCAGAGAGCAACCAGCCCTCACCAGGCTCCACACTGTCATCCAG
Seq A exon
TAG
Seq C2 exon
GTCTGTGGAACTAAATGGATTCATGACCTTCAGGGATCAGTACATGGGGATGTCGGTGCCTCCACATTATCAGTACATACCACACCTTTTTAGCTATTCTGGCCACTCACCACTTTTGCCCCCACAAGCTCGAAGCCTGGACCCTCAGTCCTACAGTCTGATTCATCAGCTGATGTCAGCGGAAGACCTGGAGCCATTGGGGACACCTATGTTGATTGAAGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013232-5-9,5-8-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.923 A=NA C2=0.013
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGTTTCAGAGAGCAACCAGC
R:
ACCGACATCCCCATGTACTGA
Band lengths:
106-109
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]