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SPHK2 sphingosine kinase 2 [ Homo sapiens (human) ]

Gene ID: 56848, updated on 8-Jul-2021

Summary

Official Symbol
SPHK2provided by HGNC
Official Full Name
sphingosine kinase 2provided by HGNC
Primary source
HGNC:HGNC:18859
See related
Ensembl:ENSG00000063176 MIM:607092
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SK 2; SK-2; SPK 2; SPK-2
Summary
This gene encodes one of two sphingosine kinase isozymes that catalyze the phosphorylation of sphingosine into sphingosine 1-phosphate. Sphingosine 1-phosphate mediates many cellular processes including migration, proliferation and apoptosis, and also plays a role in several types of cancer by promoting angiogenesis and tumorigenesis. The encoded protein may play a role in breast cancer proliferation and chemoresistance. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Aug 2011]
Expression
Ubiquitous expression in kidney (RPKM 6.4), duodenum (RPKM 5.5) and 25 other tissues See more
Orthologs
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Genomic context

See SPHK2 in Genome Data Viewer
Location:
19q13.33
Exon count:
9
Annotation release Status Assembly Chr Location
109.20210514 current GRCh38.p13 (GCF_000001405.39) 19 NC_000019.10 (48619409..48630407)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (49122763..49133662)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene family with sequence similarity 83 member E Neighboring gene sperm acrosome associated 4 Neighboring gene ribosomal protein L18 Neighboring gene D-box binding PAR bZIP transcription factor Neighboring gene secretory blood group 1, pseudogene Neighboring gene carbonic anhydrase 11 Neighboring gene netrin 5

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

Associated conditions

Description Tests
Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease.
GeneReviews: Not available
Large-scale genome-wide association analysis of bipolar disorder identifies a new susceptibility locus near ODZ4.
GeneReviews: Not available

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
 
enables D-erythro-sphingosine kinase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables D-erythro-sphingosine kinase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables D-erythro-sphingosine kinase activity TAS
Traceable Author Statement
more info
 
enables NAD+ kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables lipid kinase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables nucleosomal histone binding IDA
Inferred from Direct Assay
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables small GTPase binding NAS
Non-traceable Author Statement
more info
PubMed 
enables sphinganine kinase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables sphinganine kinase activity TAS
Traceable Author Statement
more info
 
enables sphingosine-1-phosphate receptor activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
Process Evidence Code Pubs
involved_in blood vessel development IEA
Inferred from Electronic Annotation
more info
 
involved_in brain development IEA
Inferred from Electronic Annotation
more info
 
involved_in cellular response to phorbol 13-acetate 12-myristate IDA
Inferred from Direct Assay
more info
PubMed 
involved_in female pregnancy IEA
Inferred from Electronic Annotation
more info
 
involved_in histone H2A-K5 acetylation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in histone H2B-K12 acetylation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in lipid phosphorylation IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of cell growth ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in negative regulation of histone deacetylase activity IDA
Inferred from Direct Assay
more info
PubMed 
involved_in negative regulation of histone deacetylation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in phosphorylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of apoptotic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of apoptotic process IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of calcium ion import ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of cell population proliferation IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of ceramide biosynthetic process IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of cytokine production involved in immune response ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of gene expression, epigenetic IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of histone H3-K9 acetylation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of interleukin-13 production ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of interleukin-6 production ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of mast cell activation involved in immune response ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of mast cell degranulation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of protein kinase C signaling ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of tumor necrosis factor production ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of ATP biosynthetic process ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of I-kappaB kinase/NF-kappaB signaling ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of cytochrome-c oxidase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of reactive oxygen species biosynthetic process ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in sphinganine-1-phosphate biosynthetic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in sphinganine-1-phosphate biosynthetic process IDA
Inferred from Direct Assay
more info
PubMed 
involved_in sphingolipid biosynthetic process TAS
Traceable Author Statement
more info
 
involved_in sphingolipid metabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in sphingosine biosynthetic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in sphingosine biosynthetic process IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in sphingosine biosynthetic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in sphingosine metabolic process ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in sphingosine-1-phosphate receptor signaling pathway IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytosol IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytosol TAS
Traceable Author Statement
more info
 
located_in endoplasmic reticulum ISS
Inferred from Sequence or Structural Similarity
more info
 
is_active_in intracellular membrane-bounded organelle IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in lysosomal membrane HDA PubMed 
is_active_in membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in mitochondrial inner membrane IEA
Inferred from Electronic Annotation
more info
 
located_in mitochondrion ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
 
part_of nucleosome IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
sphingosine kinase 2
NP_001191087.1
NP_001191088.1
NP_001191089.1
NP_001230805.1
NP_064511.2
XP_006723355.1
XP_011525435.1
XP_011525436.1
XP_016882497.1
XP_016882499.1

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_029867.1 RefSeqGene

    Range
    5216..16115
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001204158.3NP_001191087.1  sphingosine kinase 2 isoform b

    See identical proteins and their annotated locations for NP_001191087.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site in the coding region, compared to variant 1. The encoded isoform (b) is shorter than isoform a.
    Source sequence(s)
    AK122735, AK300541, DB367710
    Consensus CDS
    CCDS59404.1
    UniProtKB/Swiss-Prot
    Q9NRA0
    UniProtKB/TrEMBL
    B3KV83
    Related
    ENSP00000470092.1, ENST00000600537.5
    Conserved Domains (1) summary
    pfam00781
    Location:128262
    DAGK_cat; Diacylglycerol kinase catalytic domain
  2. NM_001204159.3NP_001191088.1  sphingosine kinase 2 isoform a

    See identical proteins and their annotated locations for NP_001191088.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1 and 3 both encode the same isoform (a).
    Source sequence(s)
    AC022154, AF245447, AL136701, DB053266
    Consensus CDS
    CCDS12727.1
    UniProtKB/Swiss-Prot
    Q9NRA0
    UniProtKB/TrEMBL
    A0A024QZH5
    Related
    ENSP00000469158.1, ENST00000598088.5
    Conserved Domains (1) summary
    pfam00781
    Location:187321
    DAGK_cat; Diacylglycerol kinase catalytic domain
  3. NM_001204160.3NP_001191089.1  sphingosine kinase 2 isoform c

    See identical proteins and their annotated locations for NP_001191089.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR, lacks a portion of the 5' coding region and initiates translation at a downstream, in-frame start codon, compared to variant 1. The encoded isoform (c) has a shorter N-terminus, compared to isoform a.
    Source sequence(s)
    BC010671
    Consensus CDS
    CCDS59405.1
    UniProtKB/Swiss-Prot
    Q9NRA0
    Related
    ENSP00000471205.1, ENST00000599748.5
    Conserved Domains (1) summary
    pfam00781
    Location:151285
    DAGK_cat; Diacylglycerol kinase catalytic domain
  4. NM_001243876.2NP_001230805.1  sphingosine kinase 2 isoform d

    See identical proteins and their annotated locations for NP_001230805.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) lacks an exon in the coding region and initiates translation at a downstream, in-frame start codon, compared to variant 1. The encoded isoform (d) has a shorter N-terminus, compared to isoform a.
    Source sequence(s)
    AK122735, DA926908, DB367710
    Consensus CDS
    CCDS74414.1
    UniProtKB/TrEMBL
    B3KV83, E9PCV4
    Related
    ENSP00000341091.4, ENST00000340932.7
    Conserved Domains (2) summary
    PLN02958
    Location:1175
    PLN02958; diacylglycerol kinase/D-erythro-sphingosine kinase
    PHA03247
    Location:149310
    PHA03247; large tegument protein UL36; Provisional
  5. NM_020126.5NP_064511.2  sphingosine kinase 2 isoform a

    See identical proteins and their annotated locations for NP_064511.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a). Variants 1 and 3 both encode the same isoform (a).
    Source sequence(s)
    BC006161
    Consensus CDS
    CCDS12727.1
    UniProtKB/Swiss-Prot
    Q9NRA0
    UniProtKB/TrEMBL
    A0A024QZH5
    Related
    ENSP00000245222.3, ENST00000245222.9
    Conserved Domains (1) summary
    pfam00781
    Location:187321
    DAGK_cat; Diacylglycerol kinase catalytic domain

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000019.10 Reference GRCh38.p13 Primary Assembly

    Range
    48619409..48630407
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017027010.2XP_016882499.1  sphingosine kinase 2 isoform X4

    Conserved Domains (1) summary
    pfam00781
    Location:187287
    DAGK_cat; Diacylglycerol kinase catalytic domain
  2. XM_011527133.1XP_011525435.1  sphingosine kinase 2 isoform X2

    See identical proteins and their annotated locations for XP_011525435.1

    UniProtKB/Swiss-Prot
    Q9NRA0
    UniProtKB/TrEMBL
    A0A024QZH5
    Conserved Domains (1) summary
    pfam00781
    Location:187321
    DAGK_cat; Diacylglycerol kinase catalytic domain
  3. XM_006723292.1XP_006723355.1  sphingosine kinase 2 isoform X3

    See identical proteins and their annotated locations for XP_006723355.1

    UniProtKB/Swiss-Prot
    Q9NRA0
    Conserved Domains (1) summary
    pfam00781
    Location:151285
    DAGK_cat; Diacylglycerol kinase catalytic domain
  4. XM_011527134.1XP_011525436.1  sphingosine kinase 2 isoform X3

    See identical proteins and their annotated locations for XP_011525436.1

    UniProtKB/Swiss-Prot
    Q9NRA0
    Conserved Domains (1) summary
    pfam00781
    Location:151285
    DAGK_cat; Diacylglycerol kinase catalytic domain
  5. XM_017027008.1XP_016882497.1  sphingosine kinase 2 isoform X1

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