HsaEX0017778 @ hg38
Exon Skipping
Gene
ENSG00000253552 | HOXA-AS2
Description
HOXA cluster antisense RNA 2 [Source:HGNC Symbol;Acc:HGNC:43745]
Coordinates
chr7:27115405-27123377:+
Coord C1 exon
chr7:27115405-27115571
Coord A exon
chr7:27116041-27116343
Coord C2 exon
chr7:27121919-27123377
Length
303 bp
Sequences
Splice sites
3' ss Seq
TTGTTGATTTCCACCTCCAGAAA
3' ss Score
8.91
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
Exon sequences
Seq C1 exon
CAAAAATCCGTTCGGCGGCATTTTCTCTTCAAACCCGCCCGGTCGGATGTGGCATTTGAAGAAAGAAGGCGTGGGTCAATAATCAACCCGCACTTTCTCCTCCAAACTGCTGACGCGACTCTCACCGCCTTCTCAGCTAAGCCAGCTGCCGGGAAGGCCAGCTCTCC
Seq A exon
AAATTACCAGCCGCCGCCGCTGCGCCCTTTCTAGACAAATCCCACAGCAGTTCACCCGGCTCCCCCAAAACCGCAGAGCTTTTCTTTACTGAGAGGACCCCTTGGTTCCACCAATTCCCCCAAATCCCCGTGGCTCCCGATCTCTCATCCAGGGGGACTAGAAGAAAAGATTTTCTCAGCACTAGAAGAATACTTGGAGCAGCAAAGGTGCCCGTGGTGTCTTTCTACCATTCAAGGGGTGTCCTCCTGAAGGCGTCTGAGAGGGCCTCTGGCGGTTCCAAGGCTGTGCAGCCGGGGAGGAAG
Seq C2 exon
GAAAAGGAAACGCCAAGACATAGAAAACCACGCTTTTCCCGTAGGAAGAACCGATGATGAGCCCTGATGAAAGAAGGAAGAAGACCCGCTGTCTGCGAAGGCCTAAAGGTTAGAAATACAGCAATTTTTCTCATGCCGAAGGAAAGGCAAAATGGTCTAAGAAACTGCAAGAGTGTGATACAAGTTTTCCTCAACAGCGAGCTGGGACTGGCGACAATTTCTTAACTCACAGCCTCCGCAGTCGCCTTAGTCGACAAAGAGAGCAGCCCACGCAGCGGCCGCCGCGCCCGTGCCCGTGGCCTTTACTTGCTTTTGCCCTGAAGTTCAGTGTAGTGGTTTGTTTGGGGCTTGCAGGAAGAAACAAACACACTCCCTCTGACTCTCCACAACCCATCTTTGCCTTCTGCAACCGCTTCTCCTGCCCATCGCTGGTTTTGGGGTAGGCTCTTTGTCTGCCTGAGGCCCCGCACTCGCAGGGCAAGAAGCTTAAAGGAATCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000253552_MULTIEX3-5/5=4-C2
Average complexity
C2
Mappability confidence:
100%=100=100%
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
Other assemblies
Conservation
Mouse
(mm9)
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:
GAAGAAAGAAGGCGTGGGTCA
R:
CTGCGGAGGCTGTGAGTTAAG
Band lengths:
351-654
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development