GgaALTA0000440-2/2 @ galGal4
Alternative 3'ss
Gene
ENSGALG00000001073 | NR6A1
Description
nuclear receptor subfamily 6, group A, member 1 [Source:HGNC Symbol;Acc:HGNC:7985]
Coordinates
chr17:9462991-9464229:-
Coord C1 exon
chr17:9464072-9464229
Coord A exon
chr17:9463216-9463218
Coord C2 exon
chr17:9462991-9463215
Length
3 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGA
5' ss Score
6.03
3' ss Seq
AAAAGCTTTTCCTTTTCCAGTAG
3' ss Score
6.53
Exon sequences
Seq C1 exon
ATATCGGAGGAGGAGATTGAAAGAATTATGTCCGGACAAGAATTTGAGGGAGAGGCAAACATGTCATGGAGCAACAATGGAGACAGCGACCACAGTTCCCCTGGAAATGGAGTTTCTGAGAGCAACCAGCCATCACCTGTGTCTACTCCATCTTCAAG
Seq A exon
TAG
Seq C2 exon
GTCCGTGGAGCTGAACGGATTCGCTGCACTCAGGGATCAATACATTGGGACACCAGTGTCCACGCACTATCAGTACCTCCCGCACCTTTTTAGCTATTCTGCTCACTCGGCACTGGTGCCCCCCCAGGCGCGCAGCCTGGACCCCCAGTCTCACAGCCTGATCAACCAGCTGGTGTCAGCGGAGGACCTGGAGCCGCTCGGCACGCCGATGCTCATCGAAGACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001073-5-7,5-6-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.868 A=NA C2=0.013
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0010425=Hormone_recep=PU(2.5=6.5)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCAGCCATCACCTGTGTCTA
R:
GATAGTGCGTGGACACTGGTG
Band lengths:
105-108
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]