HsaALTD1045563-2/2 @ hg38
Alternative 5'ss
Gene
ENSG00000230148 | HOXB-AS1
Description
HOXB cluster antisense RNA 1 [Source:HGNC Symbol;Acc:HGNC:43744]
Coordinates
chr17:48550340-48551076:+
Coord C1 exon
chr17:48550340-48550390
Coord A exon
chr17:48550391-48550402
Coord C2 exon
chr17:48550929-48551076
Length
12 bp
Sequences
Splice sites
5' ss Seq
GAGGTCTGT
5' ss Score
5.39
3' ss Seq
TGCGCCGGTTCTGGAACCAGATC
3' ss Score
5.92
Exon sequences
Seq C1 exon
GTGTGTTAATTTGGGCGCTTCTTGGATTCTACCCTGAGGAGGAGGCGCGTG
Seq A exon
GTGAGAGGAGAG
Seq C2 exon
ATCTTGATCTGCCGCTCGCTGAGGTTCAGCAGGTTGGCCATCTCTACACGGCGAGGCCGGCACAGGTAGCGGTTAAAATGGAACTCCTTCTCCAGCTCCACCAGCTGCGCGCTCGTGTACGCCGTCCGCGCCCGCTTGGACGCCGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000230148-15-17,16-17-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTGGGCGCTTCTTGGATTCT
R:
CGTGTAGAGATGGCCAACCTG
Band lengths:
92-104
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains