HsaINT0138699 @ hg19
Intron Retention
Gene
ENSG00000147274 | RBMX
Description
RNA binding motif protein, X-linked [Source:HGNC Symbol;Acc:9910]
Coordinates
chrX:135961176-135961612:-
Coord C1 exon
chrX:135961478-135961612
Coord A exon
chrX:135961318-135961477
Coord C2 exon
chrX:135961176-135961317
Length
160 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
GGTTATTTCATTTGACCTAGGGT
3' ss Score
5.77
Exon sequences
Seq C1 exon
ACTCACCGGCCCAAAAAAAAAAAAACATGGTTGAAGCAGATCGCCCAGGAAAGCTCTTCATTGGTGGGCTTAATACGGAAACAAATGAGAAAGCTCTTGAAGCAGTATTTGGCAAATATGGACGAATAGTGGAAG
Seq A exon
GTGAGTTGTCTGGCAGTACAGGCTGGGCTATTATAATTAAAATATAAGCTATGATGAATTTGATTGCATTGATCGTCTGACATGATAATGTATTTTTGTCCTCTAAGAAGTTCTGAGCTTTCTGTTTACACATTTACTTTGGTTATTTCATTTGACCTAG
Seq C2 exon
GGTAACACTTTATTTTTCTGAAAACTACTTTTTAGTACTCTTGATGAAAGACCGTGAAACCAACAAATCAAGAGGATTTGCTTTTGTCACCTTTGAAAGCCCAGCAGACGCTAAGGATGCAGCCAGAGACATGAATGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000147274-RBMX:NR_028477:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
NA
No structure available
Features
Disorder rate (Iupred):
C1=0.252 A=NA C2=0.483
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:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATGGTTGAAGCAGATCGCC
R:
TCATGTCTCTGGCTGCATCCT
Band lengths:
245-405
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)