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FAM98B Gene(Protein Coding)

Family With Sequence Similarity 98 Member B

GCID:
GC15P038454
GIFtS:
45
Genes Participants
UDN Logo

Aliases for FAM98B Gene

Aliases for FAM98B Gene

  • Family With Sequence Similarity 98 Member B 2 3 5
  • Family With Sequence Similarity 98, Member B 2

External Ids for FAM98B Gene

Previous GeneCards Identifiers for FAM98B Gene

  • GC15P036534
  • GC15P038746
  • GC15P015591

Summaries for FAM98B Gene

GeneCards Summary for FAM98B Gene

FAM98B (Family With Sequence Similarity 98 Member B) is a Protein Coding gene. Diseases associated with FAM98B include Spastic Paraplegia 11, Autosomal Recessive. Among its related pathways are Gene Expression and tRNA processing. GO annotations related to this gene include poly(A) RNA binding. An important paralog of this gene is FAM98A.

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for FAM98B Gene

Genomics for FAM98B Gene

Products:

  1. Regulatory Element

Regulatory Elements for FAM98B Gene

Enhancers for FAM98B Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH15G039282 1.8 FANTOM5 Ensembl ENCODE dbSUPER 15.5 +831.4 831435 5.6 ARID4B SIN3A ZNF48 YY1 GLIS2 CBX5 GATA2 ZNF143 FOS REST THBS1 FAM98B C15orf54 ENSG00000259447
GH15G039126 1.8 FANTOM5 Ensembl ENCODE dbSUPER 13.5 +676.5 676475 7.6 FOXA2 MLX ARID4B SIN3A ZNF766 GATA2 FOS DEK MIER2 PPARG FAM98B THBS1 SRP14 LOC105370780 LOC105370781
GH15G038650 1.5 FANTOM5 Ensembl ENCODE dbSUPER 10.2 +198.1 198108 4.1 KLF1 MTA2 BHLHE40 NR2F1 CHD1 CEBPG TBX21 IKZF1 TARDBP TCF7 RASGRP1 FAM98B C15orf53 LOC105370775
GH15G038669 1.4 Ensembl ENCODE dbSUPER 10.3 +217.3 217329 4.6 HDGF TBP PKNOX1 TBL1XR1 WRNIP1 ZNF143 ZNF207 RELB ETV6 IKZF2 RASGRP1 C15orf53 FAM98B LOC105370775
GH15G038867 1.3 Ensembl ENCODE dbSUPER 11 +414.3 414258 1.8 TBP FOXA2 RAD21 RFX5 GATA2 SCRT2 SMARCC2 RCOR1 FOS DEK FAM98B ENSG00000274281 LOC105370781
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around FAM98B on UCSC Golden Path with GeneCards custom track

Promoters for FAM98B Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000075147 274 2000 MLX CREB3L1 ZFP64 DMAP1 YY1 ZNF143 SP3 MEF2D ZNF610 ZNF585B

Transcription factor binding sites by QIAGEN in the FAM98B gene promoter:

Genomic Location for FAM98B Gene

Chromosome:
15
Start:
38,454,127 bp from pter
End:
38,487,710 bp from pter
Size:
33,584 bases
Orientation:
Plus strand

Genomic View for FAM98B Gene

Genes around FAM98B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
FAM98B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for FAM98B Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for FAM98B Gene

Proteins for FAM98B Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • Protein details for FAM98B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q52LJ0-FA98B_HUMAN
    Recommended name:
    Protein FAM98B
    Protein Accession:
    Q52LJ0
    Secondary Accessions:
    • A8MUW5
    • Q8N935

    Protein attributes for FAM98B Gene

    Size:
    330 amino acids
    Molecular mass:
    37191 Da
    Quaternary structure:
    • Component of the tRNA-splicing ligase complex.

    Alternative splice isoforms for FAM98B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for FAM98B Gene

Protein Expression for FAM98B Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for FAM98B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for FAM98B Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for FAM98B Gene

Domains & Families for FAM98B Gene

Protein Domains for FAM98B Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for FAM98B Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q52LJ0

UniProtKB/Swiss-Prot:

FA98B_HUMAN :
  • Belongs to the FAM98 family.
Family:
  • Belongs to the FAM98 family.
genes like me logo Genes that share domains with FAM98B: view

No data available for Gene Families for FAM98B Gene

Function for FAM98B Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line
  7. Flow Cytometry

Gene Ontology (GO) - Molecular Function for FAM98B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IDA 22658674
genes like me logo Genes that share ontologies with FAM98B: view

Phenotypes for FAM98B Gene

GenomeRNAi human phenotypes for FAM98B:
genes like me logo Genes that share phenotypes with FAM98B: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Flow Cytometry Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for FAM98B Gene

Localization for FAM98B Gene

Subcellular locations from UniProtKB/Swiss-Prot for FAM98B Gene

Nucleus. Cytoplasm.

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 FAM98B gene
Compartment Confidence
nucleus 5
cytosol 2

Gene Ontology (GO) - Cellular Components for FAM98B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA,IDA 24608264
GO:0005654 nucleoplasm TAS --
GO:0005737 cytoplasm IDA,IEA 24608264
GO:0043231 intracellular membrane-bounded organelle IDA --
GO:0072669 tRNA-splicing ligase complex IDA 21311021
genes like me logo Genes that share ontologies with FAM98B: view

Pathways & Interactions for FAM98B Gene

genes like me logo Genes that share pathways with FAM98B: view

Pathways by source for FAM98B Gene

3 Reactome pathways for FAM98B Gene

Gene Ontology (GO) - Biological Process for FAM98B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006388 tRNA splicing, via endonucleolytic cleavage and ligation TAS --
genes like me logo Genes that share ontologies with FAM98B: view

No data available for SIGNOR curated interactions for FAM98B Gene

Drugs & Compounds for FAM98B Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for FAM98B Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone
  5. Flow Cytometry

mRNA/cDNA for FAM98B Gene

(2) REFSEQ mRNAs :
(4) Additional mRNA sequences :
(158) Selected AceView cDNA sequences:
(4) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for FAM98B Gene

Family with sequence similarity 98, member B:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for FAM98B Gene

No ASD Table

Relevant External Links for FAM98B Gene

GeneLoc Exon Structure for
FAM98B
ECgene alternative splicing isoforms for
FAM98B

Expression for FAM98B Gene

Products:

  1. Primer

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for FAM98B Gene

mRNA expression in normal human tissues for FAM98B Gene
mRNA expression by BioGPS for FAM98B GenemRNA expression by GTEx for FAM98B Gene

Protein differential expression in normal tissues from HIPED for FAM98B Gene

This gene is overexpressed in Peripheral blood mononuclear cells (8.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for FAM98B Gene



Protein tissue co-expression partners for FAM98B Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of FAM98B Gene:

FAM98B

SOURCE GeneReport for Unigene cluster for FAM98B Gene:

Hs.744003

Evidence on tissue expression from TISSUES for FAM98B Gene

  • Nervous system(4.3)
genes like me logo Genes that share expression patterns with FAM98B: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for FAM98B Gene

Orthologs for FAM98B Gene

This gene was present in the common ancestor of animals.

Orthologs for FAM98B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
 Mammalia FAM98B 34 35
  • 99.67 (n)
cow
(Bos Taurus)
 Mammalia FAM98B 34 35
  • 92.12 (n)
dog
(Canis familiaris)
 Mammalia FAM98B 34 35
  • 91.78 (n)
mouse
(Mus musculus)
 Mammalia Fam98b 34 16 35
  • 86.26 (n)
oppossum
(Monodelphis domestica)
 Mammalia FAM98B 35
  • 85 (a)
 OneToOne
rat
(Rattus norvegicus)
 Mammalia Fam98b 34
  • 84.78 (n)
platypus
(Ornithorhynchus anatinus)
 Mammalia FAM98B 35
  • 54 (a)
 OneToOne
chicken
(Gallus gallus)
 Aves FAM98B 34 35
  • 76.52 (n)
lizard
(Anolis carolinensis)
 Reptilia FAM98B 35
  • 67 (a)
 OneToOne
tropical clawed frog
(Silurana tropicalis)
 Amphibia fam98b 34
  • 64.87 (n)
zebrafish
(Danio rerio)
 Actinopterygii fam98b 35
  • 46 (a)
 OneToOne
fruit fly
(Drosophila melanogaster)
 Insecta CG5913 35
  • 32 (a)
 OneToMany
worm
(Caenorhabditis elegans)
 Secernentea tag-322 35
  • 26 (a)
 OneToMany
sea squirt
(Ciona savignyi)
 Ascidiacea -- 35
  • 43 (a)
 OneToMany
Species where no ortholog for FAM98B 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)
  • 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 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)
  • wheat (Triticum aestivum)

Evolution for FAM98B Gene

ENSEMBL:
Gene Tree for FAM98B (if available)
TreeFam:
Gene Tree for FAM98B (if available)

Paralogs for FAM98B Gene

Paralogs for FAM98B Gene

(2) SIMAP similar genes for FAM98B Gene using alignment to 2 proteins:

Pseudogenes.org Pseudogenes for FAM98B Gene

genes like me logo Genes that share paralogs with FAM98B: view

Variants for FAM98B Gene

Sequence variations from dbSNP and Humsavar for FAM98B Gene

SNP ID Clin Chr 15 pos Sequence Context AA Info Type
rs1000148454 -- 38,477,550(+) CCAAA(C/T)ACCTG intron-variant
rs1000252264 -- 38,483,092(+) TGTAC(C/T)TCATA intron-variant
rs1000283317 -- 38,482,739(+) AAGGC(A/T)GTAGC intron-variant
rs1000473904 -- 38,459,451(+) GAGGC(-/T)TCTTA intron-variant
rs1000504963 -- 38,462,812(+) AGCAG(A/T)TTATG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for FAM98B Gene

Variant ID Type Subtype PubMed ID
nsv1500 CNV deletion 18451855

Variation tolerance for FAM98B Gene

Residual Variation Intolerance Score: 39.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.68; 32.14% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for FAM98B Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
FAM98B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for FAM98B Gene

Disorders for FAM98B Gene

MalaCards: The human disease database

(1) MalaCards diseases for FAM98B Gene - From: DISEASES

Disorder Aliases PubMed IDs
spastic paraplegia 11, autosomal recessive
  • hereditary spastic paraplegia 11
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for FAM98B

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
FAM98B
genes like me logo Genes that share disorders with FAM98B: view

No data available for UniProtKB/Swiss-Prot and Genatlas for FAM98B Gene

Publications for FAM98B Gene

  1. hCLE/C14orf166 Associates with DDX1-HSPC117-FAM98B in a Novel Transcription-Dependent Shuttling RNA-Transporting Complex. (PMID: 24608264) PAcrez-GonzA!lez A. … Nieto A. (PLoS ONE 2014) 2 3 4 64
  2. Analysis of orthologous groups reveals archease and DDX1 as tRNA splicing factors. (PMID: 24870230) Popow J. … Martinez J. (Nature 2014) 3 4 64
  3. HSPC117 is the essential subunit of a human tRNA splicing ligase complex. (PMID: 21311021) Popow J. … Martinez J. (Science 2011) 3 4 64
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64

Products for FAM98B Gene

Sources for FAM98B Gene

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