RnoINT0125161 @ rn6
Intron Retention
Gene
ENSRNOG00000005387 | Rbm3
Description
RNA binding motif protein 3 [Source:RGD Symbol;Acc:620145]
Coordinates
chrX:15099558-15100059:+
Coord C1 exon
chrX:15099558-15099675
Coord A exon
chrX:15099676-15099952
Coord C2 exon
chrX:15099953-15100059
Length
277 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
CTCTCCCCCACCCTCCCCAGTGG
3' ss Score
8.4
Exon sequences
Seq C1 exon
GACTTGGATTCTGCCATGTCTTCTGAAGAAGGAAAACTCTTCGTGGGAGGGCTCAACTTCAACACTGATGAGCAGGCACTTGAAGACCACTTCAGCAGCTTCGGGCCTATCTCTGAGG
Seq A exon
GTGAGCCATGGATCAGCCCCCAGGTTGAGGGTTGGTGGGTAAGAGTGAGTCTAGGACTAAAACCTGAAATTCTGCCTTCCGCGTCTGTGAGGTACAGTTAGGCTGAGAAAAATACAATGGGATACGGGATTTTTTTCTGGGGGAGGAGGAGTTGGTGGGGGCGCTATTTGATGTGTGCTGCTGTGGCTGTGCCTGTGCCTGGTTTGCTTGGCAGGCTATTGCCTTCCACTTTAATGTTCTAACATATGTATTTCTGCCTCTCCCCCACCCTCCCCAG
Seq C2 exon
TGGTTGTTGTCAAGGACCGGGAGACTCAAAGATCCCGGGGTTTTGGCTTCATCACCTTCACAAACCCAGAGCATGCCTCCGATGCCATGAGAGCCATGAATGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005387:ENSRNOT00000007367:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.076 A=NA C2=0.439
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(38.0=77.1)
A:
NA
C2:
PF0007617=RRM_1=PD(57.6=33.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTTGGATTCTGCCATGTCTTCT
R:
TGGCTCTCATGGCATCGGAG
Band lengths:
213-490
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]