This gene represents a retrogene of RNA binding motif protein, X-linked (RBMX), which is located on chromosome X. While all introns in the coding sequence have been processed out compared to the RBMX locus, the ORF is intact and there is specific evidence for transcription at this location. The preservation of the ORF by purifying selection in all Old World monkeys carrying it ... See more...

Aliases for RBMXL1 Gene

Aliases for RBMXL1 Gene

  • RBMX Like 1 2 3 5
  • Heterogeneous Nuclear Ribonucleoprotein G-Like 1 3 4
  • RNA Binding Motif Protein, X-Linked-Like-1 3 4
  • RNA Binding Motif Protein, X-Linked Like 1 2 3
  • Kynurenine Aminotransferase III 2
  • RBM1 3

External Ids for RBMXL1 Gene

Previous GeneCards Identifiers for RBMXL1 Gene

  • GC01M089116
  • GC01M089218
  • GC00U930610
  • GC01M089446
  • GC01M087562

Summaries for RBMXL1 Gene

Entrez Gene Summary for RBMXL1 Gene

  • This gene represents a retrogene of RNA binding motif protein, X-linked (RBMX), which is located on chromosome X. While all introns in the coding sequence have been processed out compared to the RBMX locus, the ORF is intact and there is specific evidence for transcription at this location. The preservation of the ORF by purifying selection in all Old World monkeys carrying it suggests that this locus is likely to be functional, possibly during male meiosis when X chromosomal genes are silenced or during haploid stages of spermatogenesis. This gene shares 5' exon structure with the cysteine conjugate-beta lyase 2 locus on chromosome 1, but the coding sequences are non-overlapping. Alternative splicing results in two transcript variants. [provided by RefSeq, Jun 2009]

GeneCards Summary for RBMXL1 Gene

RBMXL1 (RBMX Like 1) is a Protein Coding gene. Among its related pathways are mRNA Splicing - Major Pathway. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and nucleotide binding. An important paralog of this gene is RBMX.

UniProtKB/Swiss-Prot Summary for RBMXL1 Gene

Additional gene information for RBMXL1 Gene

No data available for CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for RBMXL1 Gene

Genomics for RBMXL1 Gene

GeneHancer (GH) Regulatory Elements for RBMXL1 Gene

Promoters and enhancers for RBMXL1 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH01J088990 Promoter/Enhancer 2.4 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 750.6 +0.4 403 4 ZBTB40 SP1 LCORL FOXA1 POLR2A USF2 CREB1 MIXL1 ZNF362 MYC HSALNG0005043 KYAT3 RBMXL1 GBP3 GBP5 GBP6 GBP7 PTGES3P1 lnc-PKN2-4
GH01J088984 Promoter/Enhancer 1.1 EPDnew ENCODE 760.6 +8.0 7985 3 CTCF CREB1 RAD21 ZNF384 ZBTB33 HMG20B POLR2A PRDM10 PKNOX1 CEBPB RBMXL1 GBP6 GBP5 ENSG00000237568 KYAT3 lnc-PKN2-4
GH01J088980 Promoter/Enhancer 0.8 EPDnew Ensembl 760.7 +12.1 12059 3.4 HLF SCRT2 SCRT1 RUNX3 FEZF1 ZNF843 PRDM6 RBMXL1 KYAT3 GBP6 GBP5 GBP2 lnc-PKN2-4
GH01J088991 Promoter 0.6 EPDnew 750.6 +2.6 2614 0.1 ZNF644 YY1 BCL6 RBMXL1 GBP5 GBP6 KYAT3 lnc-PKN2-4
GH01J088983 Promoter 0.3 EPDnew 750.4 +9.9 9896 0.1 RBMXL1 GBP6 GBP5 KYAT3 lnc-PKN2-4
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around RBMXL1 on UCSC Golden Path with GeneCards custom track

Genomic Locations for RBMXL1 Gene

Genomic Locations for RBMXL1 Gene
chr1:88,979,456-88,992,960
(GRCh38/hg38)
Size:
13,505 bases
Orientation:
Minus strand
chr1:89,445,139-89,458,643
(GRCh37/hg19)
Size:
13,505 bases
Orientation:
Minus strand

Genomic View for RBMXL1 Gene

Genes around RBMXL1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RBMXL1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RBMXL1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RBMXL1 Gene

Proteins for RBMXL1 Gene

  • Protein details for RBMXL1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96E39-RMXL1_HUMAN
    Recommended name:
    RNA binding motif protein, X-linked-like-1
    Protein Accession:
    Q96E39

    Protein attributes for RBMXL1 Gene

    Size:
    390 amino acids
    Molecular mass:
    42142 Da
    Quaternary structure:
    No Data Available
    Miscellaneous:
    • According to some authors, RBMXL1 is a RBMX retrogene on chromosome X which is likely to be functional.

neXtProt entry for RBMXL1 Gene

Post-translational modifications for RBMXL1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for RBMXL1 Gene

No data available for DME Specific Peptides for RBMXL1 Gene

Domains & Families for RBMXL1 Gene

Gene Families for RBMXL1 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Suggested Antigen Peptide Sequences for RBMXL1 Gene

GenScript: Design optimal peptide antigens:
  • RNA binding motif protein, X-linked-like 1 (Q5T9T9_HUMAN)
  • RNA binding motif protein, X-linked-like-1 (RBMXL_HUMAN)
genes like me logo Genes that share domains with RBMXL1: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for RBMXL1 Gene

Function for RBMXL1 Gene

Molecular function for RBMXL1 Gene

UniProtKB/Swiss-Prot Function:
RNA-binding protein which may be involved in pre-mRNA splicing.

Gene Ontology (GO) - Molecular Function for RBMXL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IBA 21873635
genes like me logo Genes that share ontologies with RBMXL1: view
genes like me logo Genes that share phenotypes with RBMXL1: view

Animal Model Products

CRISPR Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for RBMXL1 Gene

Localization for RBMXL1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RBMXL1 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for RBMXL1 gene
Compartment Confidence
nucleus 4
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for RBMXL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IBA,IEA 21873635
GO:0005681 spliceosomal complex IBA 21873635
GO:1990904 ribonucleoprotein complex IBA 21873635
genes like me logo Genes that share ontologies with RBMXL1: view

Pathways & Interactions for RBMXL1 Gene

PathCards logo

SuperPathways for RBMXL1 Gene

SuperPathway Contained pathways
1 mRNA Splicing - Major Pathway
genes like me logo Genes that share pathways with RBMXL1: view

Pathways by source for RBMXL1 Gene

1 KEGG pathway for RBMXL1 Gene

Gene Ontology (GO) - Biological Process for RBMXL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006397 mRNA processing IEA --
GO:0008380 RNA splicing IEA --
GO:0048026 positive regulation of mRNA splicing, via spliceosome IBA 21873635
genes like me logo Genes that share ontologies with RBMXL1: view

No data available for SIGNOR curated interactions for RBMXL1 Gene

Drugs & Compounds for RBMXL1 Gene

No Compound Related Data Available

Transcripts for RBMXL1 Gene

mRNA/cDNA for RBMXL1 Gene

(2) REFSEQ mRNAs :
(9) Additional mRNA sequences :
(4) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for RBMXL1 Gene

No ASD Table

Relevant External Links for RBMXL1 Gene

GeneLoc Exon Structure for
RBMXL1
ECgene alternative splicing isoforms for
RBMXL1

Expression for RBMXL1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RBMXL1 Gene

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for RBMXL1 Gene



Protein tissue co-expression partners for RBMXL1 Gene

NURSA nuclear receptor signaling pathways regulating expression of RBMXL1 Gene:

RBMXL1

Evidence on tissue expression from TISSUES for RBMXL1 Gene

  • Liver(4.2)
  • Eye(4.1)
genes like me logo Genes that share expression patterns with RBMXL1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for RBMXL1 Gene

Orthologs for RBMXL1 Gene

This gene was present in the common ancestor of animals.

Orthologs for RBMXL1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RBMX 33
  • 100 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Rbmx 33
  • 94 (a)
ManyToMany
oppossum
(Monodelphis domestica)
Mammalia -- 33
  • 88 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Rbmxl1 32
  • 86.72 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 33
  • 85 (a)
OneToMany
dog
(Canis familiaris)
Mammalia -- 33
  • 52 (a)
ManyToMany
chicken
(Gallus gallus)
Aves RBMX 33
  • 89 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 33
  • 88 (a)
OneToMany
zebrafish
(Danio rerio)
Actinopterygii rbmx 33
  • 72 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta tra2 33
  • 20 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea rsp-8 33
  • 23 (a)
OneToMany
Species where no ortholog for RBMXL1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • cow (Bos Taurus)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for RBMXL1 Gene

ENSEMBL:
Gene Tree for RBMXL1 (if available)
TreeFam:
Gene Tree for RBMXL1 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for RBMXL1: view image

Paralogs for RBMXL1 Gene

(10) SIMAP similar genes for RBMXL1 Gene using alignment to 1 proteins:

  • RMXL1_HUMAN
genes like me logo Genes that share paralogs with RBMXL1: view

Variants for RBMXL1 Gene

Sequence variations from dbSNP and Humsavar for RBMXL1 Gene

SNP ID Clin Chr 01 pos Variation AA Info Type
rs1000650906 -- 88,987,312(-) G/A intron_variant
rs1001014774 -- 88,987,409(-) C/T intron_variant
rs1001310606 -- 88,980,856(-) A/G 3_prime_UTR_variant
rs1001807767 -- 88,994,916(-) A/G upstream_transcript_variant
rs1002214567 -- 88,979,141(-) T/C downstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for RBMXL1 Gene

Variant ID Type Subtype PubMed ID
dgv207n100 CNV loss 25217958
esv2758948 CNV gain 17122850
esv7403 CNV gain 19470904
nsv1002798 CNV gain 25217958
nsv946054 CNV duplication 23825009

Variation tolerance for RBMXL1 Gene

Residual Variation Intolerance Score: 85.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.90; 35.39% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for RBMXL1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RBMXL1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RBMXL1 Gene

Disorders for RBMXL1 Gene

Additional Disease Information for RBMXL1

No disorders were found for RBMXL1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RBMXL1 Gene

Publications for RBMXL1 Gene

  1. Emergence of young human genes after a burst of retroposition in primates. (PMID: 16201836) Marques AC … Kaessmann H (PLoS biology 2005) 3 4 56
  2. Quantitative mapping of RNA-mediated nuclear estrogen receptor β interactome in human breast cancer cells. (PMID: 29509190) Giurato G … Tarallo R (Scientific data 2018) 3 56
  3. The HIV-1 Tat protein recruits a ubiquitin ligase to reorganize the 7SK snRNP for transcriptional activation. (PMID: 29845934) Faust TB … Frankel AD (eLife 2018) 3 56
  4. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 56
  5. Site-specific mapping of the human SUMO proteome reveals co-modification with phosphorylation. (PMID: 28112733) Hendriks IA … Nielsen ML (Nature structural & molecular biology 2017) 4 56

Products for RBMXL1 Gene

Sources for RBMXL1 Gene