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SBNO2 strawberry notch homolog 2 [ Homo sapiens (human) ]

Gene ID: 22904, updated on 1-Jun-2020

Summary

Official Symbol
SBNO2provided by HGNC
Official Full Name
strawberry notch homolog 2provided by HGNC
Primary source
HGNC:HGNC:29158
See related
Ensembl:ENSG00000064932 MIM:615729
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SNO; STNO; KIAA0963
Expression
Ubiquitous expression in appendix (RPKM 17.5), spleen (RPKM 13.1) and 25 other tissues See more
Orthologs

Genomic context

See SBNO2 in Genome Data Viewer
Location:
19p13.3
Exon count:
33
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 19 NC_000019.10 (1107637..1174268, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (1107633..1174282, complement)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene Rho GTPase activating protein 45 Neighboring gene RNA polymerase II, I and III subunit E Neighboring gene glutathione peroxidase 4 Neighboring gene uncharacterized LOC102723798 Neighboring gene collagen alpha-1(VII) chain-like Neighboring gene SBNO2 intron CAGE-defined low expression enhancer Neighboring gene Sharpr-MPRA regulatory region 734 Neighboring gene high mobility group box 2 pseudogene 1

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

NHGRI GWAS Catalog

Description
Genome-wide meta-analysis increases to 71 the number of confirmed Crohn's disease susceptibility loci.
NHGRI GWA Catalog
Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease.
NHGRI GWA Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Tat tat HIV-1 Tat upregulates the expression of strawberry notch homolog 2 (SBNO2) in human primary T cells PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ00173

Gene Ontology Provided by GOA

Function Evidence Code Pubs
chromatin DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
histone binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
bone mineralization IEA
Inferred from Electronic Annotation
more info
 
bone trabecula morphogenesis IEA
Inferred from Electronic Annotation
more info
 
cellular response to interleukin-11 ISS
Inferred from Sequence or Structural Similarity
more info
 
cellular response to interleukin-6 IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cellular response to interleukin-6 IDA
Inferred from Direct Assay
more info
PubMed 
cellular response to leukemia inhibitory factor ISS
Inferred from Sequence or Structural Similarity
more info
 
cellular response to lipopolysaccharide ISS
Inferred from Sequence or Structural Similarity
more info
 
macrophage activation involved in immune response IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
macrophage activation involved in immune response IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of transcription, DNA-templated IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of transcription, DNA-templated IMP
Inferred from Mutant Phenotype
more info
PubMed 
osteoclast differentiation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
osteoclast fusion IEA
Inferred from Electronic Annotation
more info
 
positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of inflammatory response IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of inflammatory response IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of transcription, DNA-templated IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
cellular_component ND
No biological Data available
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
protein strawberry notch homolog 2

NCBI Reference Sequences (RefSeq)

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.

mRNA and Protein(s)

  1. NM_001100122.2NP_001093592.1  protein strawberry notch homolog 2 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) has multiple differences in the presence and absence of exons at its 5' end, which produces a unique 5' UTR and translation initiation at a unique start codon, compared to variant 1. The encoded protein (isoform 2) is shorter than isoform 1.
    Source sequence(s)
    AI433817, AK125139, BG332816, BP315965
    Consensus CDS
    CCDS45895.1
    UniProtKB/Swiss-Prot
    Q9Y2G9
    Related
    ENSP00000400762.1, ENST00000438103.6
    Conserved Domains (2) summary
    pfam13871
    Location:675953
    Helicase_C_4; C-terminal domain on Strawberry notch homologue
    pfam13872
    Location:161448
    AAA_34; P-loop containing NTP hydrolase pore-1
  2. NM_014963.3NP_055778.2  protein strawberry notch homolog 2 isoform 1

    See identical proteins and their annotated locations for NP_055778.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AB023180, AI433817, AK125139, BG332816, BQ950129, DC400108
    Consensus CDS
    CCDS45894.1
    UniProtKB/Swiss-Prot
    Q9Y2G9
    Related
    ENSP00000354733.2, ENST00000361757.8
    Conserved Domains (2) summary
    pfam13871
    Location:7321010
    Helicase_C_4; C-terminal domain on Strawberry notch homologue
    pfam13872
    Location:218505
    AAA_34; P-loop containing NTP hydrolase pore-1

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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
    1107637..1174268 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011527804.3XP_011526106.1  protein strawberry notch homolog 2 isoform X1

    Conserved Domains (2) summary
    pfam13871
    Location:7321010
    Helicase_C_4; C-terminal domain on Strawberry notch homologue
    pfam13872
    Location:218505
    AAA_34; P-loop containing NTP hydrolase pore-1

Reference GRCh38.p13 ALT_REF_LOCI_1

Genomic

  1. NT_187621.1 Reference GRCh38.p13 ALT_REF_LOCI_1

    Range
    225..48834 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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