HsaINT1026250 @ hg38
Intron Retention
Gene
ENSG00000204304 | PBX2
Description
PBX homeobox 2 [Source:HGNC Symbol;Acc:HGNC:8633]
Coordinates
chr6:32186813-32187395:-
Coord C1 exon
chr6:32187242-32187395
Coord A exon
chr6:32186902-32187241
Coord C2 exon
chr6:32186813-32186901
Length
340 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGAT
5' ss Score
3.56
3' ss Seq
TCCCTCTCTGCCCCCACAAGGCT
3' ss Score
4.22
Exon sequences
Seq C1 exon
GTCTCCAACTGGTTTGGCAACAAGAGGATTCGCTATAAGAAAAACATCGGAAAGTTCCAAGAGGAGGCAAACATCTATGCTGTCAAGACCGCCGTGTCAGTCACCCAGGGGGGCCACAGCCGCACCAGCTCCCCGACACCCCCTTCCTCTGCAG
Seq A exon
GTGGATCCCACTGTCACCCCGGCTGACTGTTTTGCACACTTCCTGCTTTTGTTCCCACTTCCTATCTAGGCAGGATCATAGCAGAGAGGGGGCCTTTTGGGGTGAGAGGGACCGAGCTGAGATAGGCTGGAGATGTCAGGGGACAGAGGCCATTCCAGTGATCTTAGTTCTGCCTTTCTTCCCACGGGTGGCCAAGGAACAGCCTGCTCTTTCTGTGTGTTGGAATGTTATTTTGTGGATAATTGGAGTATAGTAGCATGTCCCCACAAGAGTTGAGAGTTGTGGTTCATCCTCTACCATCACGGGCTCTATTACACTCTTCCCTCTCTGCCCCCACAAG
Seq C2 exon
GCTCTGGCGGCTCTTTCAATCTCTCAGGATCTGGAGACATGTTTCTGGGGATGCCTGGGCTCAACGGAGATTCCTATTCTGCTTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204304:ENST00000375050:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.327 A=NA C2=0.467
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PD(21.7=25.0)
A:
NA
C2:
NO
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:
GGCAACAAGAGGATTCGCTAT
R:
GGGAAGCAGAATAGGAATCTCCG
Band lengths:
226-566
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains