HsaINT1040778 @ hg38
Intron Retention
Gene
ENSG00000204231 | RXRB
Description
retinoid X receptor beta [Source:HGNC Symbol;Acc:HGNC:10478]
Coordinates
chr6:33196434-33197941:-
Coord C1 exon
chr6:33197762-33197941
Coord A exon
chr6:33196607-33197761
Coord C2 exon
chr6:33196434-33196606
Length
1155 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
TCTCCCCCTTCCCCCTGCAGCGG
3' ss Score
13.3
Exon sequences
Seq C1 exon
GCAAACACTACGGGGTTTACAGCTGTGAGGGTTGCAAGGGCTTCTTCAAACGCACCATCCGCAAAGACCTTACATACTCTTGCCGGGACAACAAAGACTGCACAGTGGACAAGCGCCAGCGGAACCGCTGTCAGTACTGCCGCTATCAGAAGTGCCTGGCCACTGGCATGAAGAGGGAGG
Seq A exon
GTAAGGACCCGCCCTGCCCAGGCGTCTTAGACCACATGCCCTTCTCCCTTATCCCACTCAGACTGTGTACCTCTCTGGAAGGGTGGACTGCTCTCTCTCCTCTAGAGGGCGATATTTGATTTCTCTCTCCCTTCGCAGCTCTCCTCCCTGTTACCCTGTTCTGGCCCTTGAGTTTCCTTCTTAATGGTTAGGCCTCTGTGGCCTGCACATATGACCCCTCCCTAGACTGATCCTAGGATAGGATAACTTTTCCTTAGCCATGATGGGCTGTCTCCCCATTTCTAACCTGAGTGGTTCCTCCTCTGATTCCATGGACCTTCTCTGGTCTCTGTCTCCTGTTATCTGTGATCTTTCCTCTAACTCCTGGGACTGGGCACTCTTAAGCTTACAGACTTTACTGAAGACCTCAGGGCTTCCCTTCCTTCTTCTGTGTCTCCATCTTATCTTCTTAAGTCAGATTCCTAGGATTCTGAGAGACACTTTAGAGCATATCTTGGTCAAAACACCCACTTTAGAGAAGATGAGCCTGAGGCTTGGCTTTCCCAAGGTCATGCAACAAAGGAGTGGCAGGCAGGTTTGGGATCAGAACCCACATCTTCAAAGACCTAGGCCAGTGCTCCTTTCACTGCCTATTTGTTGAGTCAGAAGAGCACAAGATTTGCACTCAGACACACTTAGAGTCAGTTGTATGACCTGCCATGTATTATATGAATTTAAGCAAACTAATCTCTTTGAACCCCGAGTTCTTCATCTTAAAAATGAGAATAAATGCTTCCAGCATCATTATGATAATTGAGTGAATGGTAAAATGTGCTTAGCATGTTTCTTGGCATATTTTATTTAAAAAAATTTTTTTTTTCAATCAGCTTTCTCAGGTTGAATCTTGGCATGTTTTTTTTAACCATGTAGTAGGCTCTCCATTTAAATTCCTCCCTAATTCTTTTACCTACCTCACCCTTCCCGACTGACTTACCTGCCCTTTTATAACCCTTCCTTCAGGGCTGCCCCCAGTCCACCCTTTCTAGTGACTTCCCCAATTCCTATAAATATCTCCCAAGGGCCATGAGATCCTGATGAGGCCGTAAGGATATTTGTGGAACCCCTTCATGGCTGGCTGCTGACTTTCCATTTTTTCTCTCCCCCTTCCCCCTGCAG
Seq C2 exon
CGGTACAGGAGGAGCGTCAGCGGGGAAAGGACAAGGATGGGGATGGGGAGGGGGCTGGGGGAGCCCCCGAGGAGATGCCTGTGGACAGGATCCTGGAGGCAGAGCTTGCTGTGGAACAGAAGAGTGACCAGGGCGTTGAGGGTCCTGGGGGAACCGGGGGTAGCGGCAGCAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204231:ENST00000374680:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.033 A=NA C2=0.845
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=PD(82.9=95.1)
A:
NA
C2:
PF0010425=Hormone_recep=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAACACTACGGGGTTTACAGCT
R:
CTACCCCCGGTTCCCCCA
Band lengths:
342-1497
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains