DreINT0125527 @ danRer10
Intron Retention
Gene
ENSDARG00000014244 | rbmx
Description
RNA binding motif protein, X-linked [Source:ZFIN;Acc:ZDB-GENE-030131-579]
Coordinates
chr14:31520775-31521149:-
Coord C1 exon
chr14:31521017-31521149
Coord A exon
chr14:31520882-31521016
Coord C2 exon
chr14:31520775-31520881
Length
135 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
TCTTTTCTTGTTTTGTGTAGTTC
3' ss Score
7.71
Exon sequences
Seq C1 exon
TGGCATTAACGTTACTGGAAAAAAATGGCAGAGGCAGACCGACCTGGGAAGCTCTTCATCGGTGGCCTGAACACTGAAACTAGTGAGAAAGTCCTCGAAGCCTATTTCAGCAAATTCGGCAGAATATCGGAAG
Seq A exon
GTAATTTTCATTTTGTATGATCTAAATTGTAACGTAGATGTTATGACTTAAAGTATAATTAATTGTAGAGAGACTAGCTCAAACCTAGTGTTTGTGGCATTAAGTATGGTTTGTATCTTTTCTTGTTTTGTGTAG
Seq C2 exon
TTCTGTTGATGAAAGATCGTGAAACGAACAAATCTAGAGGTTTTGCGTTTGTAACTTATGAAAATCCTGGTGATGCTAAGGATGCTGCCAGAGAAATGAATGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000014244:ENSDART00000128730:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.324 A=NA C2=0.910
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCATTAACGTTACTGGAAAAA
R:
TCCATTCATTTCTCTGGCAGCA
Band lengths:
237-372
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]