HsaALTD1052130-5/11 @ hg38
Alternative 5'ss
Gene
ENSG00000148200 | NR6A1
Description
nuclear receptor subfamily 6 group A member 1 [Source:HGNC Symbol;Acc:HGNC:7985]
Coordinates
chr9:124540033-124552312:-
Coord C1 exon
chr9:124546082-124552312
Coord A exon
chr9:124546003-124546081
Coord C2 exon
chr9:124540033-124540187
Length
79 bp
Sequences
Splice sites
5' ss Seq
GTAGCTGGG
5' ss Score
-20.51
3' ss Seq
GTCTCAATTCCTTGTCAAAGATA
3' ss Score
3.56
Exon sequences
Seq C1 exon
ATTTCAAGCTTACAGAAAATTTGCAACAGTAGTAAGAATTCTCATCTGCCCTTTACCCAAATTCACCAATTGTTAACATTTTGCCATGTGAGTTGCACATCAGAATAAATGTATAATTTAAGAATAATTAATAATTAAGAATGTATAATTAAGAGTTTATGCACCACCTAAAAGTATCTTATGTTTCTCCACTAGGATGCATACATAGTAGTAGTAGAAAGAAGTCTGGTCTTACAGTCTGATAGTGTGGGTTCCAACCCTGATTCTGCTCTTTAGTTTCTGTCTCTTCCAGCAAAATACTTCATTTCTGTGAGCCTTAGATCCATCTGTTCAATGGGAGTGATACTAATACTTTACTCATGAGTGATTTTACCTCAGAGAACAGTATGTAACACATAGTAGATTTCTATCATATACGTATTTTGTTACTCTGGGTGGGGTCGAGGAAGAAGATGAACATTTTTTTGAGATGGAGTTTTGCTCTTGTTGCCCAGGCTGGA
Seq A exon
GTGCAATAGCACCATCTCAGTTCACCGCAACCTCCACCTCCCGGGTTCAAGCAATTCTCCTGCCTCAGCCTCCCGAGTA
Seq C2 exon
ATATCGGAAGAAGAAATCGAAAGGATCATGTCTGGGCAGGAGTTTGAGGAAGAGGCCAATCACTGGAGCAACCATGGTGATAGTGACCACAGTTCCCCTGGGAACAGGGCTTCGGAGAGCAACCAGCCCTCACCAGGCTCCACACTGTCTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148200-17-17,18-17,19-17,20-17,21-17,22-17,23-17,24-17,25-17,26-17,27-17-5/11
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.874
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
ENST00000344523fB21371
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGGGGTCGAGGAAGAAGAT
R:
CCAGGGGAACTGTGGTCACTA
Band lengths:
168-247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains