BtaALTA0020371-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000040585 | NR6A1
Description
nuclear receptor subfamily 6, group A, member 1 [Source:HGNC Symbol;Acc:HGNC:7985]
Coordinates
chr11:95568494-95570220:-
Coord C1 exon
chr11:95570066-95570220
Coord A exon
chr11:95568719-95568721
Coord C2 exon
chr11:95568494-95568718
Length
3 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CATGAGACTTTTCTCTCCAGCAG
3' ss Score
5.18
Exon sequences
Seq C1 exon
ATATCAGAGGAAGAGATCGAAAGGATTATGTCTGGGCAAGAATTTGAGGAAGAGGCCAATCATTGGAGCAACCATGGTGACAGCGACCACAGTTCCCCTGGGAACAGGGCTTCAGAGAGCAACCAGCCCTCACCCGGCTCTACACTCTCCTCCAG
Seq A exon
CAG
Seq C2 exon
GTCTGTGGAACTAAATGGATTCGTGGCATTCAGGGATCAGTACATGGGGATGTCTGTGCCTCCACACTATCAATATATACCGCACCTTTTTACCTATTCTGCCCACTCGCCACTTCTGCCCCCACAAGCTCGAAGCCTGGATCCCCAGTCATACAGTCTGATTCATCAGCTGGTGTCAGCCGAGGACCTGGAGCCATTGGGCACACCCATGTTGATTGAAGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000040585-2-3,2-2-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.885 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGGAACAGGGCTTCAGAGAG
R:
CCCTGAATGCCACGAATCCAT
Band lengths:
92-95
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development