HsaINT1015841 @ hg38
Intron Retention
Gene
ENSG00000230148 | HOXB-AS1
Description
HOXB cluster antisense RNA 1 [Source:HGNC Symbol;Acc:HGNC:43744]
Coordinates
chr17:48545121-48545564:+
Coord C1 exon
chr17:48545121-48545357
Coord A exon
chr17:48545358-48545494
Coord C2 exon
chr17:48545495-48545564
Length
137 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGA
5' ss Score
6.12
3' ss Seq
TCCCTTCTCCCCTTCCCCAGGAA
3' ss Score
12.08
Exon sequences
Seq C1 exon
GACTCCAGCGAAATTACAGGGAATTCGTGGTCACGGGACCGGCCTCCGCCAATCGCTCGTCTGGGCCTGGTGGAAAACAGAGAGCATTATTTGGTTTAATTGATTCAAAAACACCAGAGGACCACGACCAGGACACCATGAGCCCCCATTCCTACACCAGTGCCTCACATGCTCTCTCCCCAATGCCTCCGTTTCTCCAGAAAAGCTAGAGGAACCTTTTCCTCATCCCCTTCGAAG
Seq A exon
GTTAGAAGGTTTCAGAAGCCTGGAAAAGAAGAGACTCTAAGGGAGAAACCTTCCTCTTTTCCAAGTATTTTAATAGAGTAAATTAAGGCCTTCTTTACGTGGCCAGCAGCATCCCCTTCCCTTCTCCCCTTCCCCAG
Seq C2 exon
GAAAAGATGAGTGAGGATCTCCGCGTTGGAGGAAGAGGGAGTCGAAAGAGGCTTCCACTCTTTGAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000230148:ENST00000435312:2
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
(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:
GCGAAATTACAGGGAATTCGTGG
R:
AACGCGGAGATCCTCACTCAT
Band lengths:
257-394
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains