HsaINT1040783 @ hg38
Intron Retention
Gene
ENSG00000204231 | RXRB
Description
retinoid X receptor beta [Source:HGNC Symbol;Acc:HGNC:10478]
Coordinates
chr6:33193588-33195050:-
Coord C1 exon
chr6:33194945-33195050
Coord A exon
chr6:33194830-33194944
Coord C2 exon
chr6:33193588-33194829
Length
115 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGA
5' ss Score
8.94
3' ss Seq
TTCTCCCACCTCCACCCCAGGTT
3' ss Score
7.75
Exon sequences
Seq C1 exon
ATGCCAAGGGCCTCTCCAACCCTAGTGAGGTGGAGGTCCTGCGGGAGAAAGTGTATGCATCACTGGAGACCTACTGCAAACAGAAGTACCCTGAGCAGCAGGGACG
Seq A exon
GTGAGATGGGGCTGGGGGGCACTGAGGCTCCCTTGGGGGTGGGGAGTGCTATGAGGATGTGTTCAGGGCCCGTGTGCTTCCAGCTCTCAATCCCCTTCTCCCACCTCCACCCCAG
Seq C2 exon
GTTTGCCAAGCTGCTGCTACGTCTTCCTGCCCTCCGGTCCATTGGCCTTAAGTGTCTAGAGCATCTGTTTTTCTTCAAGCTCATTGGTGACACCCCCATCGACACCTTCCTCATGGAGATGCTTGAGGCTCCCCATCAACTGGCCTGAGCTCAGACCCAGACGTGGTGCTTCTCACACTGGAGGAGCACACATCCAAGAGGGACTCCAAGCCCTGGGGCAGGGTGGGGGGCCATGTTCCCAGAACCTTGATGGGGTGAGAAGTACAGGGCAGAACCAAGAACATAAACCCTCCAAGGGATCTGCTTGATATCCCAAGTTGGAAGGGACCCCAGATACCTGTGAGGACTGGTTGTCTCTCTTCGGTGGCCTTGAGTCTCTGAATTTGTCGGGTTCTCCCATGATTTGGGGTGATTTCTCACCCTCTGTCCTTCCCCCAGCACAAAGCACTGGCCTTGCCTCCAGGACCTTGCTTCCTTCTCATCTTGCCTCATTTTGCTTCCCATCTGAAGAGTGGAAATGGGGAACTCCCCCAGAGGTGGATACTGGGGGGCAGGCCTCCCAAGCTGATGGACATGAGAGTAGGGCCCTGACAGGCCTTCCTCCTCTCAAACCTGGCAGATGGGGGCCTCTCTGGAAGAGGGAGGGGCCCTGTCACTGTCCAGAGTCTCTTTTTACACTTCACCTCCTTCTGCAGTCAGACTGAAATATAAAAAAGGTGGTGGTGGTGGTGAAGGGGCTGGTGGAGATGTAGGAACCGATCTGCTATTTTTAATTTCCTGTGAGGATAGAGACTTGCAGTTAGACTCAAAGAAGTACTGTACTTTCCCAGGTTGACTAAGAAATGCCAGTGGTGGAGGTGGGTGTTTGGGAAAGGCAGGGCCCTGAAATGGCCTGTCCCTAGGGCTCTCCAAGCACTAGCCTTCCCAGCTTCCCGCCGCCCCCCCTATCTCTTCCTGTCTAACTTGGGGAAGGGGCCTGGGCTGTGAGGACAGGGCCCCCACAGGGGATGGTTTCACGAGTGTAGTCCCGGAGGCCTTCCCTTTACAGCTCTCCTCCAGCCCTGGGCACATAGCATAGGCTGGGGACACAGGATCCTGGCCTGAGAATTGAGGGGAGGTGGCCAGCCCGCAGAGGTGGGGTGCTGGGGCTGCATGATTTTTGCCCTGCGTCCCTTCTCTTTGGGGCTCCTTTCCCCTCTCATACATAAAATCGCTTTCAAATTAAAATCGCTGTTTTCTGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204231:ENST00000374680:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=FE(19.1=100)
A:
NA
C2:
PF0010425=Hormone_recep=PD(15.3=56.0)
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:
CAACCCTAGTGAGGTGGAGGT
R:
CTGAGCTCAGGCCAGTTGATG
Band lengths:
244-359
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains