HsaEX0054683 @ hg19
Exon Skipping
Gene
ENSG00000230148 | RP11-357H14.12
Description
HOXB cluster antisense RNA 1 (non-protein coding) [Source:HGNC Symbol;Acc:43744]
Coordinates
chr17:46620913-46623449:+
Coord C1 exon
chr17:46620913-46620999
Coord A exon
chr17:46622483-46622719
Coord C2 exon
chr17:46622857-46623449
Length
237 bp
Sequences
Splice sites
3' ss Seq
ACTCTCTCTATTAAACCCAGGAC
3' ss Score
5.39
5' ss Seq
AAGGTTAGA
5' ss Score
6.12
Exon sequences
Seq C1 exon
CATGCGCCGGTTCTGAAACCAGACTTTGACCTGCCTTTCGGTGAGGTCCAGCAAGGCCGCGATCTCGACGCGGCGTGGCCGGCACAG
Seq A exon
GACTCCAGCGAAATTACAGGGAATTCGTGGTCACGGGACCGGCCTCCGCCAATCGCTCGTCTGGGCCTGGTGGAAAACAGAGAGCATTATTTGGTTTAATTGATTCAAAAACACCAGAGGACCACGACCAGGACACCATGAGCCCCCATTCCTACACCAGTGCCTCACATGCTCTCTCCCCAATGCCTCCGTTTCTCCAGAAAAGCTAGAGGAACCTTTTCCTCATCCCCTTCGAAG
Seq C2 exon
GAAAAGATGAGTGAGGATCTCCGCGTTGGAGGAAGAGGGAGTCGAAAGAGGCTTCCACTCTTTGAAAAAGGTCAGTATTAAGGTGAAAATAAGAAAGAGATTTACAATCATCACACCACTATCCCTGTTACCCTCCAAAAACAACAGTTAAATCTTGGGAAATGGACAGGAACTCCCAGGCAGACACATAGGAGTGAGATGGAGCATAAGGGGCATTTTTGGGCCTCTGGCCTCCATCGCTGTATGGTCTGGGTTCTCTTCTCTGCCCAGTGTTTGCAGCACTGCCTCTGCCCCTTATGTACCCCTGCTTTCCTCACTTTCAGGCTTCCATGCTTCTCTGTGACATCCCCCAAAAACAGGCAGAGTCTAAGATGTGCATGTACCCACTCAAGCCTCAAGCTTGTATCTGTATCCATATCCAGGGACATGAACAAGAACTGAGGTAGCCATTGGTTTAACTTAGAGCACTCTCAAAGTTCAGATCAGCGTTATGTGTGTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000230148_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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTTCGGTGAGGTCCAGCAAG
R:
CCCAGACCATACAGCGATGGA
Band lengths:
306-543
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- 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)