RnoINT0130063 @ rn6
Intron Retention
Gene
ENSRNOG00000004537 | Rxrg
Description
retinoid X receptor gamma [Source:RGD Symbol;Acc:620046]
Coordinates
chr13:85859913-85861518:+
Coord C1 exon
chr13:85859913-85860045
Coord A exon
chr13:85860046-85861426
Coord C2 exon
chr13:85861427-85861518
Length
1381 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGTG
5' ss Score
-0.3
3' ss Seq
CCTTGCTTCCTGTGAAGCAGAGT
3' ss Score
3.12
Exon sequences
Seq C1 exon
GGTGGAATGAATTGCTGATTGCCTCCTTCTCCCACCGCTCGGTTTCTGTCCAGGATGGCATCCTGCTGGCCACAGGCCTCCACGTCCACAGGAGCAGCGCTCACAGCGCGGGCGTCGGCTCCATCTTTGACAG
Seq A exon
GTTGTGACTCCCTTCTGTTTCCAGGATTTACACCCACTGTGCACATGCACACGCGTGTATACACTCGTCTCTGTCTCTTCTCTTCTTCCCCCTCTCCCTCTGTGTAATTCTGATATGCAGTGGGCAGGCCAAACAGGTGCACATGGCTATATCAGAATCACGGGGGCCTTTGTGTACGTAGAACCAGTGTCTCATTCTATAGTTCCAGCTAGTCTCAAGCTGGTGATAATCTTTCTGCTTCAGCCTCCCGAGTGCTGGGATTACAGGTGTGAACCCAGTTTCCAGAGCAGATTGAACGCATGGAAATATAAACCTGGAGACTGGAGGAGGGAGTTTGGCAAAGGTGATGGTAATAAAACAGAGCAAGTCACAGGCCAGCATCGATGCCTGGCAGGTGGAAGGACCTGGTGCCATCATGCTTTCTAGATGGGCGGAGCTCTGGCACCAGCTAGTAAAGCTGCATGGGGTCCATGGACAGTGTATCTTAGGGGTCAGGGATGGAGAAGGGGTCCAGATCCATCTTTAAGAGGCTCAGTGTTTTGGGCTAACAATATCTTGGACTCTTTCTCTCTGGAACCCAGATCTCTGTGCTACAGCAGGAGCGAGTTCAGTCAGAAAACAACACTATGACAGAGATTCACTCTCCTAAATATACTAAAGTACATTTAAAAATAAATAAAATCTAAATATAATATAAAGTGTATATATAATACAAAGCATGCTTAAAAATGAAGTAAACAGTAATATAAGGGATACATGTAATATGACATATGATATATAGTAAGTAAAAATAATTAAAGTAATAAGCAGATTGGTGACTTGGGGCTAAAGGAATGAGCTGCTGATATCGAGAAAGTCTCCCTATCGGGTTCCAGGACCCGGGGTTCCAGCATAAATAGTCTTTTCTTGAGGGTTATGCGTGCTCGGTTCAGATGGGTGGACTTCCTCCTTGTTCCTTTCCATGATGTACTCAAGCACTCTCATGGTTCCTGGAGGTGTTTGTCCTTTTCCCTGGGCTGCCTTCCCTGGGTTCGTCCACATGTACAGTGCTTCCCCTGCTGCATTTCTCATTTGCAACTCATTCAAGACGCTCTTCTGCTCCCAGCTGGGAGGCCATGGCATCCACCCTGGTGAGCCCCAGAGGCAGTTTTTATTCACTGGTCTTAGCCCTGTAGTCGGTCACTTCCACACCATTCCTCCCTCTCCACTGTAATCCTCAGGACGAGGGACTTCATCGCCTTCGCCCCCGCATCCGAATGCCCACGGCAGCGTCTAAAACCTGAACAGGGCCATCACAGGTACTGGCGGGATGTATTTCGTTGGTCCATGATCCTGAACTCAGCCCTTTTCTCCCTCCCTGTCCTTGCTTCCTGTGAAGCAG
Seq C2 exon
AGTCCTCACAGAGCTGGTGTCCAAGATGAAGGACATGCGGATGGATAAGTCGGAGCTCGGGTGCCTGCGCGCCATTGTGCTGTTCAATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004537:ENSRNOT00000006117:7
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=0.000
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=FE(22.8=100)
A:
NA
C2:
PF0010425=Hormone_recep=FE(16.1=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:
GGTGGAATGAATTGCTGATTGCC
R:
GGATTGAACAGCACAATGGCG
Band lengths:
223-1604
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]