HsaALTA1020262-1/2 @ hg38
Alternative 3'ss
Gene
ENSG00000120068 | HOXB8
Description
homeobox B8 [Source:HGNC Symbol;Acc:HGNC:5119]
Coordinates
chr17:48613206-48614939:-
Coord C1 exon
chr17:48614281-48614939
Coord A exon
NA
Coord C2 exon
chr17:48613206-48613506
Length
0 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
CTTTCCCCCATTCCCAGCAGCCG
3' ss Score
6.92
Exon sequences
Seq C1 exon
TTCCCCCTCCCCACCCCCTCCCCAACAGCCCCCAACTATAGCCTCCGCCGCCGCCGCCGCCTCAAAATTCAATAAAATGAGCTCTTATTTCGTCAACTCACTGTTCTCCAAATACAAAACCGGGGAGTCCCTGCGCCCCAATTATTATGACTGCGGCTTCGCCCAGGACCTGGGCGGCCGACCCACCGTGGTGTACGGTCCCAGCAGCGGCGGCAGCTTCCAGCACCCGTCGCAAATCCAGGAGTTCTACCACGGGCCGTCGTCGCTGTCCACGGCTCCCTACCAGCAGAACCCGTGCGCCGTGGCGTGCCACGGGGACCCCGGCAATTTCTACGGCTACGACCCGCTGCAACGCCAGAGCCTATTCGGTGCGCAGGATCCAGACCTGGTGCAGTACGCAGACTGCAAGCTTGCCGCCGCCAGCGGCCTGGGCGAGGAGGCCGAGGGCTCCGAGCAGAGCCCGTCGCCCACACAGCTCTTCCCCTGGATGCGCCCGCAAG
Seq A exon
NA
Seq C2 exon
CCGCCGGACGCAGGCGAGGCCGACAGACCTACAGCCGCTACCAGACCCTGGAGCTGGAGAAGGAGTTCCTATTTAATCCCTATCTGACTCGTAAGCGGCGAATCGAGGTATCGCACGCCCTGGGACTGACAGAGAGACAGGTCAAAATCTGGTTCCAGAACCGGAGGATGAAGTGGAAAAAAGAGAACAACAAAGACAAGTTCCCCAGCAGCAAATGCGAGCAGGAGGAGCTGGAGAAACAGAAGCTGGAGCGGGCCCCAGAGGCGGCGGACGAGGGCGACGCGCAGAAGGGCGACAAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000120068-0-2,0-1-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.242 A=NA C2=0.498
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=WD(100=55.9)
Other Inclusion 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:
ACACAGCTCTTCCCCTGGATG
R:
AGGAACTCCTTCTCCAGCTCC
Band lengths:
101-104
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains