RnoINT0130064 @ rn6
Intron Retention
Gene
ENSRNOG00000004537 | Rxrg
Description
retinoid X receptor gamma [Source:RGD Symbol;Acc:620046]
Coordinates
chr13:85861427-85862788:+
Coord C1 exon
chr13:85861427-85861518
Coord A exon
chr13:85861519-85862682
Coord C2 exon
chr13:85862683-85862788
Length
1164 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACG
5' ss Score
7.66
3' ss Seq
AAATCCATTGCTCTCTGCAGATG
3' ss Score
7.53
Exon sequences
Seq C1 exon
AGTCCTCACAGAGCTGGTGTCCAAGATGAAGGACATGCGGATGGATAAGTCGGAGCTCGGGTGCCTGCGCGCCATTGTGCTGTTCAATCCAG
Seq A exon
GTGACGTCCCTCAGACTCCAGCCACGGCGTGGGGCCAGCTCTCTCTCTTGAGGTTGACCTCTGGGGCTCTCATTTGCTCTGCCCCTCCCCACCTCCAAGCTCAGCAGAGTCAGGGCGGTCTGAGCCCAGAACCTATCGGAGTACCGAGCCTTCTCTTTATTGCCTCTCCTCTGCAGAGCCATCCTGAAAGTATTTTAACTGGGTGTGGAGTTCCACTGGGTGGGGGCAGCTGAGGGAGATGAGATCTTTCAGTGAACGGGGCGTAGGGTATGGAAGAATGACCAGAGTCATATATGTCTCAGGAGTGGCTCATTCCCCCAAACTATTGCAGACGCGGAACTCCCATTCACTTGGCATCGGTAAAACTCTAGGGGCAGCATGTTCTAAGGGTGAGTGGGTTATGGCCAGGATGTTATTTTTGGATATTGAACTTGGGGATGGACAGTAGACCTCCAAGAGAAGCCAGGACCAAAGATACATAGGTAAGAGCTGCATTCTCAGCCTGAATTGGGAGGCAGCCATGAACCTGATGGGACATTGCTTGTGAGCAAAGACAGCAAAAAGAGCTGGGGCTGAGAATCTCACAAGCTGGTGGGAGAAAGAAGAACTGTCAAAGGAACCTAACATGTGGTCAGTGCCAAGGGAGAGGCATCTTGGAGGTCCAGGGACAAAGCACCTTAAGAGGAGGAAGTGACTAGCTTCATCAAACGCTGCTGTGTATATGACAGTCGTCTGTACTTTGACGTGACATACGTGTCCCCTTTGGTCCAAGATTGGTGTAGCTATGACGCAGGCCATGTGTAGGTTTTGCCTTCATGCTCCATCTCAACACTTAGCCATGCTTGACGTGTAGAACGTATCTGGTGAGGGCATGAATATTGCTTTTTGGGACAGGCCTGGATAAAATGAACCTCTCCTTAAGTCAGCAGATGGTTTGCTTCACTATTAACAATTTAAAATCCTTCAGACTGAGAGTTTGTTAGGGAAATTATATACAGAATGGACATCCATCTGGCACAGTGATCTGCTTACTTCCCAGTTGTCCCCATGCACGAGGTCCATGTGTCTGTCCTAACTCTAAGGGAGGTAGCCAGTATGACCCTGTCTGGAGGAGGGTGTCCTGCTGGGGCATTAACCAGAAATTAAATCCATTGCTCTCTGCAG
Seq C2 exon
ATGCCAAGGGTTTGTCCAACCCCTCGGAGGTGGAGACTCTTCGAGAGAAGGTTTATGCCACCCTCGAGGCCTATACCAAGCAGAAGTATCCAGAACAGCCTGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004537:ENSRNOT00000006117:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.037
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=FE(16.1=100)
A:
NA
C2:
PF0010425=Hormone_recep=FE(18.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTCCTCACAGAGCTGGTGTC
R:
GGCTGTTCTGGATACTTCTGCT
Band lengths:
192-1356
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]