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Aliases for SERF1B Gene

Aliases for SERF1B Gene

  • Small EDRK-Rich Factor 1B 2 3 5
  • Small EDRK-Rich Factor 1B (Centromeric) 2 3
  • SMA Modifier 1 3 4
  • Protein 4F5 3 4
  • FAM2B 3 4
  • H4F5 3 4
  • Small EDRK-Rich Factor 1 3
  • SERF1A SERF1B 4
  • SERF1 4
  • FAM2A 4
  • SMAM1 4
  • H4F5C 3

External Ids for SERF1B Gene

Previous GeneCards Identifiers for SERF1B Gene

  • GC05M069157
  • GC05M035205
  • GC05P069810
  • GC05P069856
  • GC05P069857
  • GC05P070232
  • GC05U900528
  • GC05P069358
  • GC05P065845
  • GC05P069322

Summaries for SERF1B Gene

Entrez Gene Summary for SERF1B Gene

  • This gene is part of a 500 kb inverted duplication on chromosome 5q13. This duplicated region contains at least four genes and repetitive elements which make it prone to rearrangements and deletions. The repetitiveness and complexity of the sequence have also caused difficulty in determining the organization of this genomic region. This gene is the centromeric copy which is identical to the telomeric copy. Alternatively spliced transcripts have been documented but it is unclear whether alternative splicing occurs for both the centromeric and telomeric copies of the gene. The gene encodes a protein of unknown function which bears low-level homology with the RNA-binding domain of matrin-cyclophilin, a protein which colocalizes with small nuclear ribonucleoproteins (snRNPs) and the SMN1 gene product. [provided by RefSeq, Jul 2008]

GeneCards Summary for SERF1B Gene

SERF1B (Small EDRK-Rich Factor 1B) is a Protein Coding gene. An important paralog of this gene is SERF1A.

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SERF1B Gene

Genomics for SERF1B Gene

Regulatory Elements for SERF1B Gene


Promoters for SERF1B Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000182056 354 1600 ZNF146 PRDM10

Genomic Location for SERF1B Gene

Chromosome:
5
Start:
70,025,247 bp from pter
End:
70,043,113 bp from pter
Size:
17,867 bases
Orientation:
Plus strand

Genomic View for SERF1B Gene

Genes around SERF1B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SERF1B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SERF1B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SERF1B Gene

Proteins for SERF1B Gene

  • Protein details for SERF1B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O75920-SERF1_HUMAN
    Recommended name:
    Small EDRK-rich factor 1
    Protein Accession:
    O75920
    Secondary Accessions:
    • B7ZKM2
    • O75919
    • Q52LK5

    Protein attributes for SERF1B Gene

    Size:
    110 amino acids
    Molecular mass:
    12349 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for SERF1B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SERF1B Gene

Post-translational modifications for SERF1B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SERF1B Gene

No data available for DME Specific Peptides for SERF1B Gene

Domains & Families for SERF1B Gene

Protein Domains for SERF1B Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for SERF1B Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O75920

UniProtKB/Swiss-Prot:

SERF1_HUMAN :
  • Belongs to the SERF family.
Family:
  • Belongs to the SERF family.
genes like me logo Genes that share domains with SERF1B: view

No data available for Gene Families for SERF1B Gene

Function for SERF1B Gene

Gene Ontology (GO) - Molecular Function for SERF1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003674 molecular_function ND --
genes like me logo Genes that share ontologies with SERF1B: view
genes like me logo Genes that share phenotypes with SERF1B: view

Animal Models for SERF1B Gene

MGI Knock Outs for SERF1B:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SERF1B Gene

Localization for SERF1B Gene

Gene Ontology (GO) - Cellular Components for SERF1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005575 cellular_component ND --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with SERF1B: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Subcellular locations from COMPARTMENTS for SERF1B Gene

Pathways & Interactions for SERF1B Gene

SuperPathways for SERF1B Gene

No Data Available

Interacting Proteins for SERF1B Gene

Gene Ontology (GO) - Biological Process for SERF1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007399 nervous system development TAS 9731538
genes like me logo Genes that share ontologies with SERF1B: view

No data available for Pathways by source and SIGNOR curated interactions for SERF1B Gene

Drugs & Compounds for SERF1B Gene

No Compound Related Data Available

Transcripts for SERF1B Gene

mRNA/cDNA for SERF1B Gene

(2) REFSEQ mRNAs :
(6) Additional mRNA sequences :
(8) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for SERF1B Gene

Small EDRK-rich factor 1B (centromeric):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SERF1B Gene

No ASD Table

Relevant External Links for SERF1B Gene

GeneLoc Exon Structure for
SERF1B
ECgene alternative splicing isoforms for
SERF1B

Expression for SERF1B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SERF1B Gene

Protein differential expression in normal tissues from HIPED for SERF1B Gene

This gene is overexpressed in Platelet (57.2) and Islet of Langerhans (11.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for SERF1B Gene



Protein tissue co-expression partners for SERF1B Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SERF1B Gene:

SERF1B

SOURCE GeneReport for Unigene cluster for SERF1B Gene:

Hs.559428

mRNA Expression by UniProt/SwissProt for SERF1B Gene:

O75920-SERF1_HUMAN
Tissue specificity: Isoform Long is predominantly expressed in heart, brain and skeletal muscle. Isoform Short and Isoform Long are expressed throughout the central nervous system, including spinal cord.

Evidence on tissue expression from TISSUES for SERF1B Gene

  • Nervous system(4.6)
  • Lung(4.2)
genes like me logo Genes that share expression patterns with SERF1B: view

Primer Products

No data available for mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for SERF1B Gene

Orthologs for SERF1B Gene

This gene was present in the common ancestor of chordates.

Orthologs for SERF1B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SERF1B 34
  • 99.46 (n)
-- 35
  • 99 (a)
OneToMany
dog
(Canis familiaris)
Mammalia SERF1A 34
  • 93.01 (n)
SERF2 35
  • 46 (a)
ManyToMany
cow
(Bos Taurus)
Mammalia SERF1A 34
  • 91.94 (n)
-- 35
  • 42 (a)
ManyToMany
mouse
(Mus musculus)
Mammalia Serf1 34 16
  • 89.78 (n)
Serf2 35
  • 46 (a)
ManyToMany
rat
(Rattus norvegicus)
Mammalia Serf1 34
  • 89.78 (n)
oppossum
(Monodelphis domestica)
Mammalia -- 35
  • 58 (a)
OneToMany
chicken
(Gallus gallus)
Aves -- 35
  • 58 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 50 (a)
OneToMany
zebrafish
(Danio rerio)
Actinopterygii serf2 35
  • 48 (a)
ManyToMany
si:ch211-39k3.2 35
  • 46 (a)
ManyToMany
Species where no ortholog for SERF1B 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)
  • fruit fly (Drosophila melanogaster)
  • 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)
  • platypus (Ornithorhynchus anatinus)
  • 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)
  • worm (Caenorhabditis elegans)

Evolution for SERF1B Gene

ENSEMBL:
Gene Tree for SERF1B (if available)
TreeFam:
Gene Tree for SERF1B (if available)

Paralogs for SERF1B Gene

Paralogs for SERF1B Gene

genes like me logo Genes that share paralogs with SERF1B: view

Variants for SERF1B Gene

Sequence variations from dbSNP and Humsavar for SERF1B Gene

SNP ID Clin Chr 05 pos Sequence Context AA Info Type
rs1003334033 -- 70,028,432(+) CCTGT(A/C)GTCCC intron-variant
rs1004741285 -- 70,036,325(+) CTCAC(A/G)CCTGT intron-variant
rs1004795241 -- 70,032,255(+) GAAAC(C/G)AAGTG intron-variant
rs1010920459 -- 70,037,914(+) CGAGA(C/G)TGCAC intron-variant
rs1011434092 -- 70,036,547(+) GCACC(A/G)CTGCC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SERF1B Gene

Variant ID Type Subtype PubMed ID
dgv19n31 CNV gain 19718026
dgv5695n100 CNV gain 25217958
dgv5696n100 CNV loss 25217958
dgv5697n100 CNV gain+loss 25217958
dgv7e224 CNV loss 25118596
dgv9838n54 CNV loss 21841781
dgv9842n54 CNV loss 21841781
dgv9843n54 CNV loss 21841781
dgv9844n54 CNV loss 21841781
dgv9845n54 CNV loss 21841781
dgv9846n54 CNV loss 21841781
dgv9856n54 CNV loss 21841781
dgv9857n54 CNV loss 21841781
esv22113 CNV gain+loss 19812545
esv2590135 CNV gain 19546169
esv2759348 CNV gain+loss 17122850
esv32787 CNV gain+loss 17666407
esv32846 CNV loss 17666407
esv3570183 CNV loss 25503493
esv3890639 CNV gain 25118596
esv3890645 CNV loss 25118596
esv3890647 CNV loss 25118596
esv3890650 CNV loss 25118596
esv3890652 CNV loss 25118596
esv3890653 CNV loss 25118596
esv3894208 CNV loss 25118596
esv3894209 CNV loss 25118596
nsv10707 CNV gain+loss 18304495
nsv1073892 CNV deletion 25765185
nsv1115697 CNV duplication 24896259
nsv1137530 CNV deletion 24896259
nsv428117 CNV gain+loss 18775914
nsv433371 CNV gain 18776910
nsv469668 CNV gain 16826518
nsv471432 CNV gain 19718026
nsv471547 CNV gain 19718026
nsv508367 CNV deletion 20534489
nsv511104 OTHER inversion 20534489
nsv511106 OTHER inversion 20534489
nsv511274 CNV gain 21212237
nsv514310 CNV gain 21397061
nsv598462 CNV gain 21841781
nsv598473 CNV loss 21841781
nsv598492 CNV gain 21841781
nsv598503 CNV loss 21841781
nsv598533 CNV loss 21841781
nsv598536 CNV gain 21841781
nsv598543 CNV loss 21841781
nsv598545 CNV loss 21841781
nsv7371 OTHER inversion 18451855
nsv821643 CNV loss 15273396
nsv830335 CNV gain 17160897
nsv830339 CNV gain 17160897
nsv964884 CNV duplication 23825009
nsv980661 CNV duplication 23825009
nsv980676 CNV duplication 23825009

Variation tolerance for SERF1B Gene

Gene Damage Index Score: 0.02; 0.55% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SERF1B Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SERF1B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SERF1B Gene

Disorders for SERF1B Gene

Relevant External Links for SERF1B

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SERF1B

No disorders were found for SERF1B Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SERF1B Gene

Publications for SERF1B Gene

  1. 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
  2. Identification of a candidate modifying gene for spinal muscular atrophy by comparative genomics. (PMID: 9731538) Scharf J.M. … Kunkel L.M. (Nat. Genet. 1998) 3 4 64
  3. Gene expression profile of the human trabecular meshwork: NEIBank sequence tag analysis. (PMID: 12766061) Tomarev S.I. … Malyukova I. (Invest. Ophthalmol. Vis. Sci. 2003) 3 64
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 3 64
  5. Comparative sequence analysis of the mouse and human Lgn1/SMA interval. (PMID: 10486205) Endrizzi M. … Dietrich W.F. (Genomics 1999) 3 64

Products for SERF1B Gene

Sources for SERF1B Gene

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