HsaEX0017778 @ hg19
Exon Skipping
Gene
ENSG00000253552 | CTD-2536K9.1
Description
HOXA cluster antisense RNA 2 (non-protein coding) [Source:HGNC Symbol;Acc:43745]
Coordinates
chr7:27153555-27162504:+
Coord C1 exon
chr7:27153555-27153612
Coord A exon
chr7:27155812-27155962
Coord C2 exon
chr7:27161538-27162504
Length
151 bp
Sequences
Splice sites
3' ss Seq
GCTCCCGATCTCTCATCCAGGGG
3' ss Score
7.79
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
Exon sequences
Seq C1 exon
CCGGAGATAAGCGCTAGTGCGGCGCCGGGCTCTGCCTGGGCTAGTGGCACCGACTTGG
Seq A exon
GGGGACTAGAAGAAAAGATTTTCTCAGCACTAGAAGAATACTTGGAGCAGCAAAGGTGCCCGTGGTGTCTTTCTACCATTCAAGGGGTGTCCTCCTGAAGGCGTCTGAGAGGGCCTCTGGCGGTTCCAAGGCTGTGCAGCCGGGGAGGAAG
Seq C2 exon
GAAAAGGAAACGCCAAGACATAGAAAACCACGCTTTTCCCGTAGGAAGAACCGATGATGAGCCCTGATGAAAGAAGGAAGAAGACCCGCTGTCTGCGAAGGCCTAAAGGTTAGAAATACAGCAATTTTTCTCATGCCGAAGGAAAGGCAAAATGGTCTAAGAAACTGCAAGAGTGTGATACAAGTTTTCCTCAACAGCGAGCTGGGACTGGCGACAATTTCTTAACTCACAGCCTCCGCAGTCGCCTTAGTCGACAAAGAGAGCAGCCCACGCAGCGGCCGCCGCGCCCGTGCCCGTGGCCTTTACTTGCTTTTGCCCTGAAGTTCAGTGTAGTGGTTTGTTTGGGGCTTGCAGGAAGAAACAAACACACTCCCTCTGACTCTCCACAACCCATCTTTGCCTTCTGCAACCGCTTCTCCTGCCCATCGCTGGTTTTGGGGTAGGCTCTTTGTCTGCCTGAGGCCCCGCACTCGCAGGGCAAGAAGCTTAAAGGAATCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000253552_CASSETTE1
Average complexity
S
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
Rat
(rn6)
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:
GGCTAGTGGCACCGACTTG
R:
AGAAATTGTCGCCAGTCCCAG
Band lengths:
242-393
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
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)