RPSAP58 Gene
pseudogene GIFtS: 34
GCID: GC19P023946
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|
ribosomal protein SA pseudogene 58
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Aliases
for RPSAP58 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA
Quality score for the ORGUL clustered with this gene is 3
| Aliases |
|---|
| Ribosomal Protein SA Pseudogene 581 2 | | RPSA_30_16422 |
| External Ids: | HGNC: 368091 | Entrez Gene: 3885242 | Ensembl: ENSG000002052467 | UniProtKB: A6NE094 | UniProtKB: C9JQR94 |
|---|
| | ORGUL members: | |
|---|
| NONCODE:n406201 | |
Export aliases for RPSAP58 gene to outside databasesPrevious GC identifers: GC19U901020 GC19P023490
Summaries
for RPSAP58 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
UniProtKB/TrEMBL: C9JQR9 Function: Required for the assembly and/or stability of the 40S ribosomal subunit. Required for the processing of the20S rRNA-precursor to mature 18S rRNA in a late step of the maturation of 40S ribosomal subunits (By similarity)
|
Genomic Views
for RPSAP58 gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| RefSeq DNA sequence:- NC_000019.9 NC_018930.1 NT_011295.11
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the RPSAP58 gene promoter:
NF-YA AREB6 NF-YB CBF-A CBF-B CP1A NF-Y CBF(2)
Other transcription factors
Search SABiosciences Chromatin IP Primers for RPSAP58
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat RPSAP58 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 19p12 Ensembl cytogenetic band: 19p12 HGNC cytogenetic band: 19p12RPSAP58 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 19 GeneLoc Exon Structure GeneLoc location for GC19P023946: view genomic region
(about GC identifiers)
Start:
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23,945,807 bp from pter |
End:
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24,010,937 bp from pter |
Size:
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65,131 bases |
Orientation:
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plus strand |
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Proteins
for RPSAP58 gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/TrEMBL: A6NE09 (See
protein sequence)Recommended Name: Protein RPSAP58 Size: 295 amino acids; 32909 Da
Caution: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered aspreliminary dataUniProtKB/TrEMBL: C9JQR9 (See
protein sequence) Recommended Name: Protein RPSAP58 Size: 73 amino acids; 8250 Da
Caution: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered aspreliminary dataRPSAP58 Protein expression data from MOPED and PaxDb: About this image 
ENSEMBL proteins: ENSP00000420173 ENSP00000417240 ENSP00000346598
Human Recombinant Protein Products for RPSAP58:
Gene Ontology (GO): 1 cellular component term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0015935 | small ribosomal subunit |
-- | -- |
RPSAP58 for ontologies About GeneDecksing
RPSAP58 Antibody Products:
Assay Products for RPSAP58: |
Protein
Domains /
Families
for RPSAP58 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
RPSAP58 for domains About GeneDecksing
4 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry A6NE09Graphical View of Domain Structure for InterPro Entry C9JQR9ProtoNet protein and cluster: A6NE09 UniProtKB/TrEMBL: A6NE09 Similarity: Belongs to the ribosomal protein S2P familyUniProtKB/TrEMBL: C9JQR9 Similarity: Belongs to the ribosomal protein S2P family |
Function
for RPSAP58 gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
inGenious Targeting Laboratory,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase,
shRNA from
OriGene,
Sirion Biotech,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Sirion Biotech,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
Sirion Biotech,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Molecular Function:
UniProtKB/TrEMBL Summary: C9JQR9 Function: Required for the assembly and/or stability of the 40S ribosomal subunit. Required for the processing of the20S rRNA-precursor to mature 18S rRNA in a late step of the maturation of 40S ribosomal subunits (By similarity) Gene Ontology (GO): 1 molecular function term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0003735 | structural constituent of ribosome |
-- | -- |
RPSAP58 for ontologies About GeneDecksing
Animal Models:
|
Pathways & Interactions
for RPSAP58 gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
|
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for RPSAP58
STRING Interaction
Network Preview (showing 5 interactants - click image to see 25)
5/42 Interacting proteins for RPSAP58 (ENSP000004172404) via UniProtKB, MINT, STRING, and/or I2D (see all 42)About this table
Gene Ontology (GO): 1 biological process term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0006412 | translation |
-- | -- |
RPSAP58 for ontologies About GeneDecksing
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Drugs & Compounds
for RPSAP58 gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for RPSAP58
Search CenterWatch for drugs/clinical trials and news about RPSAP58 
|
Transcripts
for RPSAP58 gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
Sirion Biotech,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
REFSEQ mRNAs for RPSAP58 gene: NM_001005472.1 Unigene Cluster for RPSAP58: Ribosomal protein SA pseudogene 58 Hs.560655 [show with all ESTs]Unigene Representative Sequence: BF6760424 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000486528 ENST00000496398(uc002nrn.3) ENST00000462186 ENST00000354585
Additional cDNA sequence: BC071971.1 NR_003662.2 24/96 DOTS entries (see all 96): DT.100860380 DT.87006252 DT.91786421 DT.102842173 DT.95378186 DT.85103296 DT.95377954 DT.100742512 DT.91786018 DT.100742475 DT.100742468 DT.91786361 DT.100801725 DT.97864862 DT.100742381 DT.100742496 DT.100742431 DT.95378228 DT.100837399 DT.100854981 DT.95378263 DT.100742502 DT.95378313 DT.100865110 24/2931 AceView cDNA sequences (see all 2931): AA928554 T47353 BM785751 T93482 CN485205 N74153 AA729128 CR614218 AI420723 AA866094 BG290085 AA569836 R97542 AA355543 CR626298 BM842027 BX408621 BE743045 R45263 AI342035 AA679869 BM996177 BU735755 T59594
GeneLoc Exon Structure
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Expression
for RPSAP58 gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| RPSAP58 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: --
About this image
See RPSAP58 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for RPSAP58
SOURCE GeneReport for Unigene cluster: Hs.560655
SABiosciences Custom PCR Arrays for RPSAP58
Primer
Products: |  | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for RPSAP58
Browse OriGene validated miRNA SYBR primer pairs
| | | Search SABiosciences RT2 qPCR
Primer Assays in human, mouse, rat RPSAP58 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat RPSAP58 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat RPSAP58 |
Orthologs
for RPSAP58 gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
This gene was present in the common ancestor of eukaryotes.
Orthologs for RPSAP58 gene from 7/25 species (see all 25) About this table
| Organism |
Taxonomic
classification |
Gene |
Description |
Human
Similarity |
Orthology
Type |
Details |
chicken
(Gallus gallus) |
Aves |
RSSA_CHICK6 |
40S ribosomal protein SA |
97(a) |
1 → many |
2(44378631-44383329) |
lizard
(Anolis carolinensis) |
Reptilia |
---- |
-- |
96(a)87(a) |
many ↔ manymany ↔ many |
GL343224.1(2172607-2178135) 4(126540318-126541058) |
zebrafish
(Danio rerio) |
Actinopterygii |
zgc558312 |
similar to laminin receptor 1 (67kD, ribosomal protein more |
82.58(n) |
|
394027 AY391434.1 |
fruit fly
(Drosophila melanogaster) |
Insecta |
sta6 |
stubarista |
54(a) |
possible ortholog |
X(1375830-1377446) |
worm
(Caenorhabditis elegans) |
Secernentea |
rps-06 |
40S ribosomal protein SA |
55(a) |
1 → many |
III(4752864-4754048) |
thale cress
(Arabidopsis thaliana) |
eudicotyledons |
P406RPSAb6 |
40S ribosomal protein Sa-2 |
47(a)37(a) |
many ↔ manymany ↔ many |
1(27242943-27244931) 3(1309294-1310887) |
rice
(Oryza sativa) |
Liliopsida |
AK104620.12 |
-- |
74.83(n) |
|
AK104620.1 |
Species with no ortholog for RPSAP58
ENSEMBL Gene Tree for RPSAP58 (if available)
TreeFam Gene Tree for RPSAP58 (if available) |
Paralogs
for RPSAP58 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for RPSAP58 gene
- RPSA2
2 SIMAP similar genes for RPSAP58 using alignment to 2 protein entries: A6NE09_HUMAN (see all proteins):RPSA LAMR1P15
RPSAP58 for paralogs About GeneDecksing
5/22 Pseudogenes.org Pseudogenes for RPSAP58 (see all 22)
PGOHUM00000247862 PGOHUM00000248259 PGOHUM00000251208 PGOHUM00000237129 PGOHUM00000237164
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Genomic Variants
for RPSAP58 gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical
significance | Chr 19 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for RPSAP58 (23945807 - 24010937 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 8 variations for RPSAP58
4 CNVs: 102805 8869 35620 5947
4 Indels: 40273 12022 61684 45745 | SABiosciences Cancer Mutation PCR Assays |
|
Disorders
/ Diseases
for RPSAP58 gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
RPSAP58 for disorders About GeneDecksing
1  disease for RPSAP58: About MalaCardsmalaria
Export disorders for RPSAP58 gene to outside databases
|
Publications
for RPSAP58 gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for RPSAP58 gene integrated from 9 sources:
(articles sorted by number of sources associating them with RPSAP58) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- Comparative analysis of processed ribosomal protein p seudogenes in four mammalian genomes. (PubMed id 19123937)1, 3 Balasubramanian S....Gerstein M. (2009)
- Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
- Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
|
External Searches for RPSAP58 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
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Genome Databases showing RPSAP58 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing RPSAP58 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing RPSAP58 gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
|
About This Section
| Patent Information for RPSAP58 gene:
Search GeneIP for patents involving RPSAP58
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for RPSAP58 gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, LifeMap BioReagents, and Sirion Biotech, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory)
About This Section
|
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|  | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat RPSAP58 | | | Search QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing RPSAP58 | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat RPSAP58 | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat RPSAP58 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat RPSAP58 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat RPSAP58 |
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 |  |  |  | |
| | | | Search Tocris compounds for RPSAP58 |
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 | | | | |  |  |  |  | | | | Search ThermoFisher Antibodies for RPSAP58 |
| | | Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat RPSAP58 |
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GeneCards Homepage -
Last full update: 18 Mar 2013 -
Incrementals: 21 Mar 2013 , 15 Apr 2013 , 27 Apr 2013 , 14 May 2013
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