HsaALTD1051450-1/8 @ hg38
Alternative 5'ss
Gene
ENSG00000173917 | HOXB2
Description
homeobox B2 [Source:HGNC Symbol;Acc:HGNC:5113]
Coordinates
chr17:48542655-48544621:-
Coord C1 exon
chr17:48544521-48544621
Coord A exon
NA
Coord C2 exon
chr17:48542655-48543747
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTCGGT
5' ss Score
7.53
3' ss Seq
CGAGCCTGTTTTCCCTGCAGATG
3' ss Score
11.77
Exon sequences
Seq C1 exon
GATGAAAGAGAAGAAATCCGCCAAGAAACCCAGCCAATCCGCCACGTCTCCTTCTCCGGCCGCCTCCGCCGTTCCGGCCTCCGGGGTCGGATCGCCTGCAG
Seq A exon
NA
Seq C2 exon
ATGGCCTGGGACTGCCGGAGGCTGGTGGCGGCGGGGCGCGCAGGCTGCGCACGGCTTACACCAACACGCAGCTGCTGGAACTGGAGAAGGAATTCCACTTTAATAAGTACCTGTGCCGGCCACGCCGCGTCGAGATCGCGGCCTTGCTGGACCTCACCGAAAGGCAGGTCAAAGTCTGGTTTCAGAACCGGCGCATGAAGCACAAGCGGCAGACGCAGCACCGAGAGCCGCCGGATGGGGAGCCTGCCTGCCCGGGAGCCCTGGAGGACATCTGCGACCCTGCCGAGGAACCCGCGGCCAGCCCGGGCGGCCCCTCCGCCTCGCGGGCGGCGTGGGAAGCCTGCTGTCACCCGCCGGAGGTGGTGCCGGGGGCCTTAAGCGCGGACCCCCGGCCTTTAGCCGTTCGCTTAGAGGGCGCAGGCGCGTCGAGTCCCGGCTGCGCGCTGCGCGGGGCCGGCGGGCTGGAGCCCGGGCCATTGCCAGAAGACGTCTTCTCGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000173917-0-1,1-1,2-1,3-1,4-1,5-1,6-1,7-1-1/8
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.740 A=NA C2=0.473
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=WD(100=25.1)
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGTCGGATCGCCTGCAG
R:
CTTCTCCAGTTCCAGCAGCTG
Band lengths:
107-111
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains