HsaINT1026252 @ hg38
Intron Retention
Gene
ENSG00000204304 | PBX2
Description
PBX homeobox 2 [Source:HGNC Symbol;Acc:HGNC:8633]
Coordinates
chr6:32184741-32186690:-
Coord C1 exon
chr6:32186604-32186690
Coord A exon
chr6:32186475-32186603
Coord C2 exon
chr6:32184741-32186474
Length
129 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
TACTCTGTCTCTCCTTTCAGGCA
3' ss Score
12.43
Exon sequences
Seq C1 exon
GTGGAATCACTCCGACACTCGATGGGGCCAGGGGGCTATGGGGATAACCTCGGGGGAGGCCAGATGTACAGCCCACGGGAAATGAGG
Seq A exon
GTGAGTGGATCCTGAAGCTCCTCTCTGTCCAGTTCTCACAGGACAGAGGGGCATTTTCCCTAGTAATGTTGTGCCCACACAGGGTTCCCAGGGCTTTCTCTGTTTTCTGTACTCTGTCTCTCCTTTCAG
Seq C2 exon
GCAAATGGCAGCTGGCAAGAGGCTGTGACCCCCTCTTCAGTGACATCCCCAACGGAGGGACCAGGGAGTGTTCACTCTGATACCTCCAACTGATCTTGCCCCTCAGGGTCACAGGGGTGGGGGCTCTCACAAGGCGACTTGAAGAGGACGCAGGCTTCCAGAGGACAAACCCCAATACAGGAGAAGCACAAGACAGAGAAGGGCCAATGGGGTCATCCCCTCCCTAACGAGACTCTCTGTGCTGGGGGTGCTAATTACATGGCAGGAAGAATGGGGCCTCTAAGGGGAGTGTGGGGTCTGTCTCTCCCTTTTTTCCATCTTTTTCCTCTCTCGCTTTCTTTCTTACACAGAAACATACACATACCGAGAAACCTATTTCTCAGACCCCTTTTTCTCCTCTGTCTTTCTCTCTCCCTCTCCCACACCTCACACACACATACTCCCACTTGCAACTATTCTGTTTCTCTCCTGGGCTCCCCCACTTTCCCTTCCCCACCCCACTTGTATGCTCTGGAATCTGTGGAGACGCCAGCCCTGCCCAATCAGAGATGCCAAAAATGGGGACATGACTTCTGGACAGAGGACATGGGCCACGCCCCCATGCATCCCCACCCCCGCCCCTCCGGACGGCTTACTTACCTCATACGCAGCTCATCTTAAACCAATAGAATCGCTCGGTGGACGAGAGTGTCTGACTCAGATATCTACCTCGGAGGGAGTTTCTGCTACTTTAGGGAATTATTGACTGGGCTTTGGGGTTGAACTTTTTTTTTTTTAAAGAAAGAAAAAGAAACCCTGGGATCCATCTGTTTTTTTTGTTGTTGTTGTTGTTTTTGTTGTTGTTGGTGGTGGTGGTGGTGGTGGTTCTTAATTTTTAATTTAGTTTGGGGAAGTAGCTTGTTTTTTTTTTTATAAATATGTTGATTTCTTGTCTTTTTTTTTTTTTATTTCTTACTTTCCCATATTAGGGGTGATAGCCAAAGGGGTTCTGGTAAGAGAAAGGGGGACAAACAGAACTGGTAAAGAGGCCCCCCTGGCTCCAGGCCTGTCCATCAGGAAGTAAATTTTACAGGGCACCAAGCTTTGCCCCCTAAAATCCCTTAGGTGTTCTTTGTTCATGCAGGCAGGTTTCTGCCGCATTTGATGTGGAGGCAGTGAAGGGCTTGCCCTGCTGGCCTCTCATCCCCCTTCTTCCCACAACCCTTGGGCAGGGCTGGACTCAGTAATTTTGAGGAAATTGAAGATGCCATCTTCCCCTGTGAGTGACATGTCTTTAATTTTTTAAAAAACTACTATTTGAAAATTGGAGGGGGAAGAATGGGAAGGGAGTTATTGCCAAATATGTTAAATATGGGTTGGGGTGCTTGTATATGTATCTTCCTCAATTTCCCCATAAATGAGGTATCTTTTTGTCACACCAAAATCAAGGGGTAGGGAGAGGGAGGAGGTTGCAAAAAGCCAGATGTGGGGGAAAAGTAACATCAACACTGTCCCATCCTCAGCCCTGAACTAGCTACCATCTGATCCCCTCAGACATTCTCAGGATTTTACAAGACTGTCAGAGTGGGGAACCCCTCCCATTAAAGATCCGGGCAGGACTGGGGACAGGTTGGAAGTGTGATGGGTGGGGGGGTGGGAGGCATGGGCCGGGGGCAGTTCTCTCCTCACTTGTAAACTTGTGTAGTTTCACAGAAAAAAAACAAAATGCAGTTTTAAATAAAGAAATTTCTTTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204304:ENST00000375050:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GTACAGCCCACGGGAAATGAG
R:
AGAGTCTCGTTAGGGAGGGGA
Band lengths:
258-387
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains