HsaINT1026246 @ hg38
Intron Retention
Gene
ENSG00000204304 | PBX2
Description
PBX homeobox 2 [Source:HGNC Symbol;Acc:HGNC:8633]
Coordinates
chr6:32188257-32188796:-
Coord C1 exon
chr6:32188723-32188796
Coord A exon
chr6:32188505-32188722
Coord C2 exon
chr6:32188257-32188504
Length
218 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGT
5' ss Score
8.14
3' ss Seq
TCCACTCGCCTGCATGCTAGGCC
3' ss Score
6.28
Exon sequences
Seq C1 exon
GAAACACGCCCTAAACTGCCACCGAATGAAGCCTGCTCTCTTTAGCGTCCTGTGTGAAATCAAGGAGAAAACTG
Seq A exon
GTATGTGGGCCCCCCCCGGATTGCTCAACTCTGGGAACAGAACCCTGTTCATTATAGGGCTAGAGTGTGACAACTTGGGGCCCTGAGGAAAGTAAGGAGTCAGGGGGACTGGGGAAGGAACCAAAGCCTGGGAACTTGGCTCTCCAGGAAGCACCAGGAGGACTGAGCACTGGGTATTGGGGTCTCTGGGTCCCTAAGTCCACTCGCCTGCATGCTAG
Seq C2 exon
GCCTCAGCATTCGGAGCTCCCAGGAGGAGGAGCCGGTGGACCCACAGCTGATGCGCTTGGACAACATGCTTCTGGCAGAGGGTGTGGCTGGGCCCGAGAAAGGGGGCGGCTCAGCAGCAGCAGCTGCAGCCGCTGCAGCCTCTGGTGGTGGTGTGTCCCCTGACAACTCCATCGAACACTCGGACTATCGCAGCAAACTTGCCCAGATCCGTCACATATACCACTCGGAGCTGGAGAAGTATGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204304:ENST00000375050:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.231 A=NA C2=0.651
Domain overlap (PFAM):
C1:
PF037928=PBC=FE(12.6=100)
A:
NA
C2:
PF037928=PBC=FE(41.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCGAATGAAGCCTGCTCTC
R:
CTTCTCCAGCTCCGAGTGGTA
Band lengths:
294-512
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains