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Aliases for LGALS9B Gene

Aliases for LGALS9B Gene

  • Galectin 9B 2 3 5
  • Lectin, Galactoside-Binding, Soluble, 9B 2 3
  • Galectin-9-Like Protein A 3 4
  • Gal-9B 3 4
  • Galectin-9 Pseudogene 3
  • Galectin-9 Like 3
  • Galectin-9B 3

External Ids for LGALS9B Gene

Previous GeneCards Identifiers for LGALS9B Gene

  • GC17M020295
  • GC17M020352

Summaries for LGALS9B Gene

Entrez Gene Summary for LGALS9B Gene

  • This gene was initially thought to represent a pseudogene of galectin 9; however, this transcript has good exon-intron structure and encodes a predicted protein of the same size as and highly similar to galectin 9. This gene is one of two similar loci on chromosome 17p similar to galectin 9 and now thought to be protein-encoding. This gene is the more centromeric gene. [provided by RefSeq, Jul 2008]

GeneCards Summary for LGALS9B Gene

LGALS9B (Galectin 9B) is a Protein Coding gene. GO annotations related to this gene include carbohydrate binding. An important paralog of this gene is LGALS9C.

UniProtKB/Swiss-Prot for LGALS9B Gene

  • Binds galactosides.

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LGALS9B Gene

Genomics for LGALS9B Gene

Regulatory Elements for LGALS9B Gene

Enhancers for LGALS9B 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
GH17G020008 1.4 FANTOM5 ENCODE 16.5 +457.3 457266 3.5 HDGF PKNOX1 CREB3L1 ARNT SIN3A ZNF2 ZNF207 ZNF143 ZNF263 SP3 AKAP10 ENSG00000261033 MEIS3P2 LGALS9B ULK2 SPECC1 ENSG00000225681
GH17G020299 1.5 FANTOM5 Ensembl ENCODE dbSUPER 14.9 +166.6 166576 2.8 HDGF PKNOX1 MTA2 NR2F1 SIN3A DPF2 JUND RAD51 IKZF1 NBN LGALS9B NOS2P3 ALDH3A1 RNU6-1057P PIR37881
GH17G020063 1.6 FANTOM5 Ensembl ENCODE dbSUPER 13.5 +402.8 402842 3.2 GTF2F1 TBP ESRRA TAF1 SREBF2 JUN MAX SIN3A ZNF664 ZFHX2 SPECC1 LGALS9B ENSG00000261033 UPF3AP2 AKAP10 ENSG00000225681 LOC105371579
GH17G020171 1.3 Ensembl ENCODE dbSUPER 16.3 +293.8 293849 4.0 ZNF133 ZNF121 SCRT2 FOS USF2 ZNF398 SMARCB1 MAFF PRDM6 SMARCA4 LGALS9B NOS2P3 RNU6-258P SPECC1 GC17M020166 GC17M020165 ENSG00000263494
GH17G020184 1.3 Ensembl ENCODE dbSUPER 16.1 +282.5 282513 1.5 HDAC1 PKNOX1 KAT2B TCF12 GATA2 CEBPB ZEB2 SMARCA4 PBX2 IKZF1 AKAP10 LGALS9B NOS2P3 ENSG00000263494 GC17M020166 GC17M020165
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around LGALS9B on UCSC Golden Path with GeneCards custom track

Genomic Location for LGALS9B Gene

Chromosome:
17
Start:
20,449,395 bp from pter
End:
20,467,539 bp from pter
Size:
18,145 bases
Orientation:
Minus strand

Genomic View for LGALS9B Gene

Genes around LGALS9B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LGALS9B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LGALS9B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LGALS9B Gene

Proteins for LGALS9B Gene

  • Protein details for LGALS9B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q3B8N2-LEG9B_HUMAN
    Recommended name:
    Galectin-9B
    Protein Accession:
    Q3B8N2
    Secondary Accessions:
    • A6NLF8
    • A8K2J8

    Protein attributes for LGALS9B Gene

    Size:
    356 amino acids
    Molecular mass:
    39660 Da
    Quaternary structure:
    No Data Available
    Miscellaneous:
    • The LGALS9-like proteins are encoded by a duplicated regions on chromosome 17; there are at least 3 genes coding for galectin-9-like proteins.

    Alternative splice isoforms for LGALS9B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for LGALS9B Gene

Post-translational modifications for LGALS9B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for LGALS9B Gene

No data available for DME Specific Peptides for LGALS9B Gene

Domains & Families for LGALS9B Gene

Gene Families for LGALS9B Gene

Protein Domains for LGALS9B Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for LGALS9B Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with LGALS9B: view

No data available for UniProtKB/Swiss-Prot for LGALS9B Gene

Function for LGALS9B Gene

Molecular function for LGALS9B Gene

UniProtKB/Swiss-Prot Function:
Binds galactosides.

Gene Ontology (GO) - Molecular Function for LGALS9B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 25416956
GO:0030246 carbohydrate binding IEA --
genes like me logo Genes that share ontologies with LGALS9B: view
genes like me logo Genes that share phenotypes with LGALS9B: view

Animal Models for LGALS9B Gene

MGI Knock Outs for LGALS9B:

Animal Model Products

CRISPR Products

miRNA for LGALS9B Gene

miRTarBase miRNAs that target LGALS9B

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for LGALS9B Gene

Localization for LGALS9B 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 LGALS9B gene
Compartment Confidence
cytosol 5
nucleus 2
mitochondrion 1
endoplasmic reticulum 1

Gene Ontology (GO) - Cellular Components for LGALS9B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005829 cytosol IDA --
genes like me logo Genes that share ontologies with LGALS9B: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for LGALS9B Gene

Pathways & Interactions for LGALS9B Gene

SuperPathways for LGALS9B Gene

No Data Available

Gene Ontology (GO) - Biological Process for LGALS9B Gene

None

No data available for Pathways by source and SIGNOR curated interactions for LGALS9B Gene

Drugs & Compounds for LGALS9B Gene

No Compound Related Data Available

Transcripts for LGALS9B Gene

mRNA/cDNA for LGALS9B Gene

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

Unigene Clusters for LGALS9B Gene

Lectin, galactoside-binding, soluble, 9B:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for LGALS9B Gene

No ASD Table

Relevant External Links for LGALS9B Gene

GeneLoc Exon Structure for
LGALS9B
ECgene alternative splicing isoforms for
LGALS9B

Expression for LGALS9B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LGALS9B Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for LGALS9B Gene

This gene is overexpressed in Esophagus - Mucosa (x11.7), Stomach (x11.3), Colon - Transverse (x10.4), and Whole Blood (x5.3).

Protein differential expression in normal tissues from HIPED for LGALS9B Gene

This gene is overexpressed in Nasal epithelium (61.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for LGALS9B Gene



Protein tissue co-expression partners for LGALS9B Gene

NURSA nuclear receptor signaling pathways regulating expression of LGALS9B Gene:

LGALS9B

SOURCE GeneReport for Unigene cluster for LGALS9B Gene:

Hs.610820

Evidence on tissue expression from TISSUES for LGALS9B Gene

  • Stomach(4.3)
  • Intestine(4.2)
genes like me logo Genes that share expression patterns with LGALS9B: view

Primer Products

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for LGALS9B Gene

Orthologs for LGALS9B Gene

This gene was present in the common ancestor of animals.

Orthologs for LGALS9B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia -- 35
  • 99 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Lgals9 34
  • 79.4 (n)
mouse
(Mus musculus)
Mammalia Lgals9 34 16 35
  • 78 (n)
dog
(Canis familiaris)
Mammalia LGALS9 35
  • 74 (a)
OneToMany
cow
(Bos Taurus)
Mammalia LGALS9 35
  • 73 (a)
ManyToMany
-- 35
  • 58 (a)
ManyToMany
oppossum
(Monodelphis domestica)
Mammalia -- 35
  • 61 (a)
ManyToMany
-- 35
  • 56 (a)
ManyToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 59 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 44 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia lgals9c 34
  • 53.12 (n)
zebrafish
(Danio rerio)
Actinopterygii zgc:92326 35
  • 47 (a)
ManyToMany
lgals9l1 35
  • 45 (a)
ManyToMany
zgc:171951 35
  • 43 (a)
ManyToMany
si:ch211-209m20.9 35
  • 42 (a)
ManyToMany
zgc:136924 35
  • 42 (a)
ManyToMany
African malaria mosquito
(Anopheles gambiae)
Insecta GALE1 34
  • 44.96 (n)
fruit fly
(Drosophila melanogaster)
Insecta galectin 34
  • 41 (n)
CG11374 35
  • 17 (a)
ManyToMany
worm
(Caenorhabditis elegans)
Secernentea lec-12 35
  • 28 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 32 (a)
ManyToMany
CSA.123 35
  • 29 (a)
ManyToMany
Species where no ortholog for LGALS9B was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • chicken (Gallus gallus)
  • 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 LGALS9B Gene

ENSEMBL:
Gene Tree for LGALS9B (if available)
TreeFam:
Gene Tree for LGALS9B (if available)

Paralogs for LGALS9B Gene

(15) SIMAP similar genes for LGALS9B Gene using alignment to 3 proteins:

Pseudogenes.org Pseudogenes for LGALS9B Gene

genes like me logo Genes that share paralogs with LGALS9B: view

Variants for LGALS9B Gene

Sequence variations from dbSNP and Humsavar for LGALS9B Gene

SNP ID Clin Chr 17 pos Sequence Context AA Info Type
rs1000263259 -- 20,457,741(+) AGCCC(A/G)GAGAC intron-variant
rs1000809862 -- 20,461,184(+) TGCAT(C/T)GTTTT intron-variant
rs1000862656 -- 20,460,795(+) GCAGA(C/T)GCCCT intron-variant
rs1000963466 -- 20,469,488(+) TCAAG(A/T)TGAAC upstream-variant-2KB
rs1001214346 -- 20,459,752(+) TCGGC(A/C)GGGGT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for LGALS9B Gene

Variant ID Type Subtype PubMed ID
dgv1711e59 CNV duplication 20981092
dgv3121n100 CNV loss 25217958
dgv5499n54 CNV gain 21841781
dgv5500n54 CNV gain 21841781
dgv5501n54 CNV loss 21841781
esv23447 CNV gain+loss 19812545
esv2758680 CNV gain 17122850
esv3349827 CNV duplication 20981092
esv3380673 CNV duplication 20981092
esv3390945 CNV duplication 20981092
esv3419011 CNV duplication 20981092
esv3445794 CNV duplication 20981092
esv3640202 CNV loss 21293372
nsv1055600 CNV loss 25217958
nsv1059504 CNV gain 25217958
nsv1066226 CNV gain 25217958
nsv1066679 CNV gain 25217958
nsv1071377 CNV deletion 25765185
nsv1072725 CNV deletion 25765185
nsv1112702 CNV deletion 24896259
nsv1150865 CNV duplication 26484159
nsv428338 CNV gain 18775914
nsv469852 CNV gain 16826518
nsv471392 CNV gain 19718026
nsv471495 CNV gain 19718026
nsv511599 CNV loss 21212237
nsv520772 CNV loss 19592680
nsv521025 CNV gain 19592680
nsv574581 CNV loss 21841781
nsv574589 CNV loss 21841781
nsv574591 CNV gain 21841781
nsv821555 CNV deletion 20802225
nsv833397 CNV loss 17160897
nsv833398 CNV loss 17160897
nsv833399 CNV loss 17160897
nsv9507 CNV gain+loss 18304495
nsv953847 CNV deletion 24416366
nsv978389 CNV duplication 23825009

Variation tolerance for LGALS9B Gene

Residual Variation Intolerance Score: 73.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.90; 79.59% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LGALS9B Gene

Human Gene Mutation Database (HGMD)
LGALS9B
SNPedia medical, phenotypic, and genealogical associations of SNPs for
LGALS9B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LGALS9B Gene

Disorders for LGALS9B Gene

Relevant External Links for LGALS9B

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LGALS9B

No disorders were found for LGALS9B Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LGALS9B Gene

Publications for LGALS9B Gene

  1. Structure and evolution of the Smith-Magenis syndrome repeat gene clusters, SMS-REPs. (PMID: 11997339) Park S.S. … Lupski J.R. (Genome Res. 2002) 2 3 64
  2. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3 64
  3. A proteome-scale map of the human interactome network. (PMID: 25416956) Rolland T. … Vidal M. (Cell 2014) 3 64
  4. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PMID: 16344560) Kimura K. … Sugano S. (Genome Res. 2006) 3 64
  5. DNA sequence of human chromosome 17 and analysis of rearrangement in the human lineage. (PMID: 16625196) Zody M.C. … Nusbaum C. (Nature 2006) 4 64

Products for LGALS9B Gene

Sources for LGALS9B Gene

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