HsaALTA0004092-1/2 @ hg19
Alternative 3'ss
Gene
ENSG00000175879 | HOXD8
Description
homeobox D8 [Source:HGNC Symbol;Acc:5139]
Coordinates
chr2:176995524-176996148:+
Coord C1 exon
chr2:176995524-176995671
Coord A exon
NA
Coord C2 exon
chr2:176996048-176996148
Length
0 bp
Sequences
Splice sites
5' ss Seq
AAGGTTGGG
5' ss Score
4.94
3' ss Seq
TTTTTTGTTTTAATCAGCAGCTC
3' ss Score
5.81
Exon sequences
Seq C1 exon
AGACAGCCGATTTTTACGACCCAGCAAGAGGCCGAGCTGGTACAATATCCTGACTGTAAATCGTCCAGTGGTAATATTGGCGAGGACCCAGACCACTTAAATCAGAGCTCGTCTCCTTCTCAAATGTTTCCGTGGATGAGACCACAAG
Seq A exon
NA
Seq C2 exon
CTCCTGGTAGACGAAGAGGAAGACAAACCTACAGTCGCTTCCAAACTCTAGAGTTGGAAAAGGAATTTCTTTTTAACCCCTATCTGACCAGGAAAAGAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000175879-1-2,1-1-1/2
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=0.590 A=NA C2=0.503
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=WD(100=58.2)
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGAGGACCCAGACCACTTAA
R:
GCGACTGTAGGTTTGTCTTCCT
Band lengths:
107-110
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)