HsaINT1026245 @ hg38
Intron Retention
Gene
ENSG00000204304 | PBX2
Description
PBX homeobox 2 [Source:HGNC Symbol;Acc:HGNC:8633]
Coordinates
chr6:32188723-32190186:-
Coord C1 exon
chr6:32189695-32190186
Coord A exon
chr6:32188797-32189694
Coord C2 exon
chr6:32188723-32188796
Length
898 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
CCACTCCCACTCCTCCCAAGGAA
3' ss Score
5.75
Exon sequences
Seq C1 exon
CTCTCTCACACACACCCCCGCTTGGGCCTCCTCTCTCTCTCCGGCTCCATTTTCTCCGCCGCCGGGGGCCGGGGTCTCCTGTGGGGGGCCCAGCCGGTATCCCAGGTCTCCCTTCAGTGCCGGGGTGAACCCCCGGGGGAGCCGGGAGCCGGGGGCAGACGGGCGGGGGTTGGGGCGGAGGGAGCAGCGGCCCCAGCGAGTTTGGGGGGAGAAGTAACCAGGCGGGGGGAGGGGCGGAGCAGGGAGGGGGCCTCAGGGCCCCCCCCCAGCTATGGACGAACGGCTACTGGGGCCGCCCCCTCCAGGCGGGGGCCGGGGGGGCCTGGGATTGGTGAGTGGGGAGCCTGGGGGCCCTGGCGAGCCTCCCGGTGGCGGAGACCCCGGTGGGGGTAGCGGGGGGGTCCCGGGAGGCCGAGGGAAGCAAGACATCGGGGACATTCTGCAGCAGATAATGACCATCACCGACCAGAGCCTGGACGAGGCCCAGGCCAA
Seq A exon
GTGAGTGCCCCCACTCCGGGACCCCACACAGACCCAGCAAACCCCGTTCACATGTTCTGAATCTTCTGGGAGCCCCCCCCAACTCCAGGGCCCTCTCCAGGATCCAACAGCTCTCTTCTCTCCTTATTCCTGGGAGCCCATAGAAAAGTGATCCCTCTCAAACCTCCCTTCACCCCCAGGCCCTGAAACCTTCACAGAGGGAACCCCCGGTGGCCCGGCTCCCCACTCCTAACCTTTTGCCGACCCCTGCAGTCTCCTGGAACAGCCCCATCCCCGGGAGCCCCCTCTGGCTCCCAGACTAAGAAACTGTTCTTGGGCTACGTTATCTTCTCCCCTAACTCTCCACCCAGCCCCCTCATTCTCTCCAGATGTGGAGACCTCCACACCCTCTCCAGAGCCCCTAAAGCTCCTCTCCACTGCTCAGCCAGACACTAGGTGCATCAAAGCCTCCCACCTGCTCAGCCCCAGGACCCCTTCACACACCCTACACTGATCTCCCCAGTTAGCTCGGCACCCCCAGCCCCACTCTGCCACCTCAAACTCTGACTCTTCTCAACCCCAGCCTCTGTCTCTCTCCCTCTGAAACCTACCAAGTCACTTTCCTTTCTCCATCCACTCCCAGATTCCTCCTCCTACCTTTCTAGACCATCTCCCAAAGCCCGCAGCCTTTAACCTGCTGCCTGCATCTTCCCTGTGTCTCCCTGAAGCTGAGGAGCTTCCCCATGCTCTGGGAGCTGATCTTTTCCCAAGAACTCCTCATTCCACCCCCAACTCATTCCACCCCCAATCCGCTTCCTCCCTCCGCAGACTGACCCTCCTCCCTCCTTGTTCTCAGGCCCCCTGCTCTGTTTCTCTAGCTCCTCAACTTTTCTCTTTCCCCACTCCCACTCCTCCCAAG
Seq C2 exon
GAAACACGCCCTAAACTGCCACCGAATGAAGCCTGCTCTCTTTAGCGTCCTGTGTGAAATCAAGGAGAAAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204304:ENST00000375050:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.231
Domain overlap (PFAM):
C1:
PF037928=PBC=PU(14.1=37.8)
A:
NA
C2:
PF037928=PBC=FE(12.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGGGAGAAGTAACCAGGCG
R:
CACAGGACGCTAAAGAGAGCA
Band lengths:
342-1240
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains