HsaINT1015845 @ hg38
Intron Retention
Gene
ENSG00000230148 | HOXB-AS1
Description
HOXB cluster antisense RNA 1 [Source:HGNC Symbol;Acc:HGNC:43744]
Coordinates
chr17:48550340-48551250:+
Coord C1 exon
chr17:48550340-48550402
Coord A exon
chr17:48550403-48551023
Coord C2 exon
chr17:48551024-48551250
Length
621 bp
Sequences
Splice sites
5' ss Seq
GAGGTCTGT
5' ss Score
5.39
3' ss Seq
AAATGGAACTCCTTCTCCAGCTC
3' ss Score
4.06
Exon sequences
Seq C1 exon
GTGTGTTAATTTGGGCGCTTCTTGGATTCTACCCTGAGGAGGAGGCGCGTGGTGAGAGGAGAG
Seq A exon
GTCTGTGTAGGTGGGGTGGGGTTCGCAGGGTCCGTGGTGCTGGCTGGGCGCCATAGGGGGCGCCCCGTTGTAGTCCAGGTTCCCGGAAGGGTGATGGGAAAGGTGGTTGAGGCCATAGAGGGAGGGGCCGGCAGGGGGCGGCAGCGGATCCGCGTAGCCGCCCCCGCCCACGTACACCGGACTGCCCTGCATGGTGGGCGTCCCGTAGGCGCCCCCGTTGGCTTGGAGGACGTGCGGCTCATACTCGGGCGCCGGGGTCGGAGGGTACTTCTGCGGGGCGCCGCAGCCTTTGAGAGGGGGCTGGTAGTTGGAGGGCAGCGCGTAGGCATTCTGGTGGGCTTTACCGAAGGCGGGTGGGGACGGGCTCTCGTAGCTGGGGGTCATGGAGTGTAAGGCGTTCATGAAGCCGGCCGTGGACTGCATGGGCTGCGGGGGGCTGCCGGCTGGAGATGGGCCCCCCGACGACGAGGCCAATCCCTTGGCCTTCTGGTCCTTCTTGTACTTCATGCGCCGGTTCTGGAACCAGATCTTGATCTGCCGCTCGCTGAGGTTCAGCAGGTTGGCCATCTCTACACGGCGAGGCCGGCACAGGTAGCGGTTAAAATGGAACTCCTTCTCCAG
Seq C2 exon
CTCCACCAGCTGCGCGCTCGTGTACGCCGTCCGCGCCCGCTTGGACGCCGCCGACCCCGGGGGGCTCTTGTCCCCTCCCCCGCCGCCGCCGCCACCGCCCCCGCTGCCACCACTGCCTCCGCCGCCGCCGCCACCGCCGCCGCCACCACAGCCCTCTGCTGGATCCGAGGGGGAGGGGTGGGAAGGGGAGAAAATGAAATAAAAGATAATTACTGAACACGCCGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000230148:ENST00000435312:6
Average complexity
IR
Mappability confidence:
NA
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
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTGTTAATTTGGGCGCTTCT
R:
TCGGCGTGTTCAGTAATTATCT
Band lengths:
288-909
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains