RnoINT0125344 @ rn6
Intron Retention
Gene
ENSRNOG00000000866 | Rbmx
Description
RNA binding motif protein, X-linked [Source:RGD Symbol;Acc:1565256]
Coordinates
chrX:159889671-159890079:-
Coord C1 exon
chrX:159889964-159890079
Coord A exon
chrX:159889778-159889963
Coord C2 exon
chrX:159889671-159889777
Length
186 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
ACCCCCATAACTGTTTTTAGTGC
3' ss Score
4.71
Exon sequences
Seq C1 exon
AGGAAAGATGGTTGAAGCAGATCGCCCAGGAAAGCTCTTTATTGGTGGGCTTAATACAGAAACAAATGAGAAAGCCCTGGAGGCAGTGTTTGGCAAATATGGACGAATAGTGGAAG
Seq A exon
GTGAGTTATCTAAAATTATATGCTAAATTAATATTAATTAAAAGGCAAGCTGTGATGAATTTGAATCCACTGATCATCTGACATGATAAATGCATTTTGTCCTCTAAGAAGTTCTGAGCTTGCTTTTTGCAAACGTGCTCTGGTTATCTTTGTTTGAATGAAAGTAACCCCCATAACTGTTTTTAG
Seq C2 exon
TGCTTTTGATGAAGGACCGAGAAACCAATAAGTCAAGAGGATTTGCTTTTGTCACATTTGAAAGCCCAGCAGATGCAAAGGATGCTGCCAGAGACATGAATGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000866:ENSRNOT00000001154:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.216 A=NA C2=0.722
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(38.0=73.0)
A:
NA
C2:
PF0007617=RRM_1=FE(49.3=100)
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:
GAAAGATGGTTGAAGCAGATCGC
R:
TCCATTCATGTCTCTGGCAGC
Band lengths:
218-404
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]