RnoINT0130051 @ rn6
Intron Retention
Gene
ENSRNOG00000000464 | Rxrb
Description
retinoid X receptor beta [Source:RGD Symbol;Acc:3611]
Coordinates
chr20:3825278-3826566:+
Coord C1 exon
chr20:3825278-3825457
Coord A exon
chr20:3825458-3826393
Coord C2 exon
chr20:3826394-3826566
Length
936 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
GCATCTCCCCCCCCCCCCAGCGG
3' ss Score
8.69
Exon sequences
Seq C1 exon
GCAAGCACTATGGGGTTTACAGCTGCGAGGGCTGCAAGGGTTTCTTCAAGCGCACCATTCGGAAGGACCTGACCTACTCATGCCGAGATAACAAAGACTGCACAGTGGACAAGCGCCAGCGGAATCGCTGTCAGTACTGTCGATATCAGAAGTGCCTGGCCACCGGCATGAAAAGGGAGG
Seq A exon
GTAAGGGCCTGCCCAAGGGCCTCACGGCTTCCTTGTCTGCGGGGCTGCGCTTGCTTTCTCCTCCAGGGGGCGCAGTTTGATTTCTCTTTCCTGTCTTCAGCTTGGTCCTCAGTACCTCAGTGTCTCTGTCTCTATCTTCATGGTCATGTCTCAGAGTTAATCCCACCTCCTAGCATAGTTTGGTCCTAGGGTGAGGTGACCTCTTCCCCAGGATGGGTCTCTTGTCTTCTCCACGTCACACAGCCCCTTCTTCCCTCTGACGCTGGGTCCTTTCTCTGGTCTCCCGGTCTCTCCCTGGACCCGGTTAAGCTACAGTCACTGAAGAGGTCAGGACTTGGTGTCTCTCTTTTCGTCTCCATATCTAGTGAAAGCTGACTCCTGGAATTCTATGAGACATTTTAGGGCTTATCTTGTCCAATTCCTGCTCTAAACAAGATGAGACTTAGCTCTCCTGGGGTCACACCGGCAGAGTGGTAGAACCGGCATCAGAACACACACCTTCCAGACCGGGCTCCGTCTACTGCTGCTCTGTGGTCAGGAGTGTCTACAGTCAAATGCGGAACTGGCCACGGTATCTTTAGCCTCCTGGAAGCAGGAGCCCATGAGGCTAGTAAGACTGCCCAACGAGTGTCAAAGCGTGTGGGCGGTATTTTAGCACATCGTCGGCCTGTTTAAATGTGGACTCAGCCTTGATTCTTTACTCTTCTGTCTTATCTGCCTATCCACTTACTTACGTGAGCGTCTGTTTGCGGTGGTGGGGATAGAGCCCAGGGTCTGGTGAGTGCTAGGCAGATTGGCTTCTGGAGCGTCCTAGCCGTTCATCCCCAATTACCTCCCTAGTCACTTTATCTCGAGCGACATTGGCTGAGAAGGCCCCCAGCAAGTTTCAGACCCTTCATAGCTGGCTTCTAATTTTGCATCTCCCCCCCCCCCCAG
Seq C2 exon
CGGTACAGGAGGAGCGACAACGGGGGAAGGACAAAGACGGGGATGGGGATGGGGCTGGGGGAGCCCCCGAGGAGATGCCGGTGGACAGGATCCTGGAGGCAGAGCTTGCTGTGGAACAGAAGAGCGACCAAGGCGTTGAGGGCCCTGGGGGCACCGGGGGGAGTGGCAGCAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000464:ENSRNOT00000041613:4
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=0.862
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
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAGCACTATGGGGTTTACAGCT
R:
CAGGGCCCTCAACGCCTT
Band lengths:
326-1262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]