RnoINT0125162 @ rn6
Intron Retention
Gene
ENSRNOG00000005387 | Rbm3
Description
RNA binding motif protein 3 [Source:RGD Symbol;Acc:620145]
Coordinates
chrX:15099953-15100804:+
Coord C1 exon
chrX:15099953-15100059
Coord A exon
chrX:15100060-15100698
Coord C2 exon
chrX:15100699-15100804
Length
639 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
TGTCTCCTTCCCATACCTAGTCC
3' ss Score
7.66
Exon sequences
Seq C1 exon
TGGTTGTTGTCAAGGACCGGGAGACTCAAAGATCCCGGGGTTTTGGCTTCATCACCTTCACAAACCCAGAGCATGCCTCCGATGCCATGAGAGCCATGAATGGAGAG
Seq A exon
GTGAGGCCTCCTGCCTGCAGAGGGGCCTTCTCCCTGTCTGCCACTTTCTTCGTTCTTTCTGTTTTCCCTCTATGTCTGCCAGGGGCAGCGTGGCCAAGAAGCCCCGCAGTGTCCACTCACAGGAGCATGACTGCCTTCTGTTCTAGGGGGTGGAGGGCAGCGGCAGACAGAGCCGGGCTGCCTGGGAGGCGACGACTGGTCCTGCATGAGGCCGAGAAGCCACCTGTGGATGGTTGACCTGCTCTGGGCTTAGGTAGTAGAGTCTGCAGACCTGTGGGCCTGGCCCGGAGAGGACCTCGTGAGTCTGCTGGGATGGACTCTGAAGCCTCAAACCAAGAGAGGCGTCTAGCCCTAATAGTCGGGCAGCTTAGAGGAGTGGGGAGGAGAACTCAGCCTGAGTTCAGTCAAGATGTAAGTAGTAGCAGGGGAGCACGGTGGATTCAGGTCCTTTTGTGGGATTCTGTAGCTCCTGGTGAAGCCATTTTGGTCAGAGGAGCTTGTCTTGGTCATGGCACCCAGATTTTGGTGCCCAGCAAGAATTTCTGGGCTTTTGCCTACCTGCCTATGCCCATTCTTCCCTCATCACTACATTGACTGACTGACAACACTTCCTTGTATCTGTCTCCTTCCCATACCTAG
Seq C2 exon
TCCCTGGATGGGCGCCAAATCCGTGTGGACCATGCAGGCAAGTCTGCCAGGGGAACCAGAGGGGGTGCCTTTGGGGCCCATGGGCGTGGTCGCAGCTACTCTAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005387:ENSRNOT00000007367:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.439 A=NA C2=0.586
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PD(57.6=33.0)
A:
NA
C2:
PF0007617=RRM_1=PD(9.9=19.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTGTTGTCAAGGACCGGGAG
R:
TCTAGAGTAGCTGCGACCACG
Band lengths:
210-849
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]