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UniProtKB - F8W2H3 (F8W2H3_DANRE)

Entry version 70 (16 Oct 2019)
Sequence version 2 (30 Nov 2016)
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Protein
Submitted name:

SRY (sex determining region Y)-box 6

Gene

sox6

Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Unreviewed-Annotation score:

Annotation score:3 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the ‘protein existence’ evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section specifies the position and type of each DNA-binding domain present within the protein.<p><a href='/help/dna_bind' target='_top'>More...</a></p>DNA bindingi559 – 627HMG boxPROSITE-ProRule annotationAdd BLAST69

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

Complete GO annotation on QuickGO ...

GO - Biological processi

Complete GO annotation on QuickGO ...

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionDNA-bindingPROSITE-ProRule annotationSAAS annotation

Enzyme and pathway databases

Reactome - a knowledgebase of biological pathways and processes

More...Reactomei		R-DRE-3769402 Deactivation of the beta-catenin transactivating complex

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Submitted name:
SRY (sex determining region Y)-box 6Imported
Submitted name:
SRY-box containing protein 6Imported
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: ‘Name’, ‘Synonyms’, ‘Ordered locus names’ and ‘ORF names’.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:sox6Imported
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)Imported
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the ‘taxonomic identifier’ or ‘taxid’.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri7955 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Actinopterygii › Neopterygii › Teleostei › Ostariophysi › Cypriniformes › Cyprinidae › Danio
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000000437 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">proteome</a> can consist of several components. <br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome 7

Organism-specific databases

Zebrafish Information Network genome database

More...ZFINi		ZDB-GENE-081120-6 sox6

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

Keywords - Cellular componenti

NucleusPROSITE-ProRule annotation

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Proteomic databases

PRoteomics IDEntifications database

More...PRIDEi		F8W2H3

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

Gene expression databases

Bgee dataBase for Gene Expression Evolution

More...Bgeei		ENSDARG00000015536 Expressed in 28 organ(s), highest expression level in embryo

ExpressionAtlas, Differential and Baseline Expression

More...ExpressionAtlasi		F8W2H3 baseline

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

Protein-protein interaction databases

STRING: functional protein association networks

More...STRINGi		7955.ENSDARP00000124730

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family_and_domains_section">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini559 – 627HMG boxInterPro annotationAdd BLAST69

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Family and Domains’ section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni1 – 127DisorderedSequence analysisAdd BLAST127
Regioni342 – 429DisorderedSequence analysisAdd BLAST88
Regioni724 – 768DisorderedSequence analysisAdd BLAST45

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Family and domains’ section denotes the positions of regions of coiled coil within the protein.<p><a href='/help/coiled' target='_top'>More...</a></p>Coiled coili186 – 206Sequence analysisAdd BLAST21
Coiled coili208 – 259Sequence analysisAdd BLAST52
Coiled coili452 – 475Sequence analysisAdd BLAST24

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Family and Domains’ section describes the position of regions of compositional bias within the protein and the particular amino acids that are over-represented within those regions.<p><a href='/help/compbias' target='_top'>More...</a></p>Compositional biasi1 – 18PolarSequence analysisAdd BLAST18
Compositional biasi61 – 100PolarSequence analysisAdd BLAST40
Compositional biasi356 – 423PolarSequence analysisAdd BLAST68
Compositional biasi738 – 753AcidicSequence analysisAdd BLAST16

Keywords - Domaini

Coiled coilSequence analysis

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		KOG0528 Eukaryota
ENOG410YZNG LUCA

Ensembl GeneTree

More...GeneTreei		ENSGT00940000156433

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...HOGENOMi		HOG000056455

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		F8W2H3

KEGG Orthology (KO)

More...KOi		K09269

Database of Orthologous Groups

More...OrthoDBi		465521at2759

TreeFam database of animal gene trees

More...TreeFami		TF320471

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...Gene3Di		1.10.30.10, 1 hit

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR009071 HMG_box_dom
IPR036910 HMG_box_dom_sf
IPR027153 SOX-5/6

The PANTHER Classification System

More...PANTHERi		PTHR45789:SF1 PTHR45789:SF1, 2 hits

Pfam protein domain database

More...Pfami		View protein in Pfam
PF00505 HMG_box, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...SMARTi		View protein in SMART
SM00398 HMG, 1 hit

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF47095 SSF47095, 1 hit

PROSITE; a protein domain and family database

More...PROSITEi		View protein in PROSITE
PS50118 HMG_BOX_2, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence_length">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequence (1+)i

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

This entry has 1 described isoform and 4 potential isoforms that are computationally mapped.Show allAlign All

F8W2H3-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSSKQATSPF TSTPDGGEDG VNQERMPWEK EENSESLVAP QLPLHNLLHN 
        60         70         80         90        100
KPPLEELQPI SSSVPPESDW DSLMSAQQRM ESDSNKVCSL YSFRNNSTSP 
       110        120        130        140        150
HKPEEGARER GDLLSSSAFG TPERRKGSLA DVVDTLKQKK LEEMTKTEQD 
       160        170        180        190        200
ESSCMEKLLS KDWKEKMERL NTGELLGEIK GTPESLAEKE RQLSTMITQL 
       210        220        230        240        250
ISLREQLLAA HDEQKKLAAS QMEKQRQQME LARQQQEQIA RQQQQLLQQQ 
       260        270        280        290        300
HKINLLQQQI QVQGHMPPLM IPIFPHDQRT LAAAAAAQQG FLFPPGMSYK 
       310        320        330        340        350
PGDNYPVQFI PSTMAAAAAS GLNPLQLQQL YAAQLASMQV SPGAKMPPLP 
       360        370        380        390        400
QPPNSAGQIS PSGLKNEKRS STPLAQVKEE GTQPLNLSAR PKTAEPIKSP 
       410        420        430        440        450
TSPTQSLFPG SKSSPNSLSK SGDIPSPIGG LGRGSSLDIL SSLNSTALFG 
       460        470        480        490        500
DQDAVMKAIQ EARKMREQIQ REQLQHHQQG MEVKLSALTS MGLNNCRTEK 
       510        520        530        540        550
ERSHYDNLGH HLSKLGEDGK IGHRVIDLTR PEDFEGGAST TEARVYREPR 
       560        570        580        590        600
GRNSNEPHIK RPMNAFMVWA KDERRKILQA FPDMHNSNIS KILGSRWKSM 
       610        620        630        640        650
TNQEKQPYYE EQARLSKIHL EKYPNYKYKP RPKRTCIIDG KKLRISEYKQ 
       660        670        680        690        700
MMRSRRQEMR QFFTVGQQPQ TQIPITTSAG VVYPGAITMA TTTPSPHMTS 
       710        720        730        740        750
DCSSASASPE PTIPVIQSTF NMKMEPGTMV PSDAVNGEDE MDMYEDFEDE 
       760 
PKSDYSSEND THEPVSAN
Length:768
Mass (Da):85,791
Last modified:November 30, 2016 - v2
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:i7E2C84C1F8AA68FB
GO

<p>In eukaryotic reference proteomes, unreviewed entries that are likely to belong to the same gene are computationally mapped, based on gene identifiers from Ensembl, EnsemblGenomes and model organism databases.<p><a href='/help/gene_centric_isoform_mapping' target='_top'>More...</a></p>Computationally mapped potential isoform sequencesi

There are 4 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
A0A1D5NSK3A0A1D5NSK3_DANRE
SRY-box transcription factor 6
sox6
785Annotation score:

Annotation score:3 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
A0A2R8QLT0A0A2R8QLT0_DANRE
SRY-box transcription factor 6
sox6
816Annotation score:

Annotation score:3 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
A0A2R8RIJ5A0A2R8RIJ5_DANRE
SRY-box transcription factor 6
sox6
784Annotation score:

Annotation score:3 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
A0A1D5NSY8A0A1D5NSY8_DANRE
SRY-box transcription factor 6
sox6
121Annotation score:

Annotation score:2 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...EMBLi

GenBank nucleotide sequence database

More...GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...DDBJi
Links Updated
BX537340 Genomic DNA No translation available.
BX936427 Genomic DNA No translation available.
BX936464 Genomic DNA No translation available.
EU532205 mRNA Translation: ACB38138.1

NCBI Reference Sequences

More...RefSeqi		NP_001116481.1, NM_001123009.1

Genome annotation databases

Ensembl eukaryotic genome annotation project

More...Ensembli		ENSDART00000100998; ENSDARP00000091770; ENSDARG00000015536
ENSDART00000150068; ENSDARP00000124730; ENSDARG00000015536
ENSDART00000185161; ENSDARP00000156079; ENSDARG00000015536
ENSDART00000193058; ENSDARP00000150954; ENSDARG00000015536

Database of genes from NCBI RefSeq genomes

More...GeneIDi		567154

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		dre:567154

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BX537340 Genomic DNA No translation available.
BX936427 Genomic DNA No translation available.
BX936464 Genomic DNA No translation available.
EU532205 mRNA Translation: ACB38138.1
RefSeqiNP_001116481.1, NM_001123009.1

3D structure databases

Database of comparative protein structure models

More...ModBasei		Search...

SWISS-MODEL Interactive Workspace

More...SWISS-MODEL-Workspacei		Submit a new modelling project...

Protein-protein interaction databases

STRINGi7955.ENSDARP00000124730

Proteomic databases

PRIDEiF8W2H3

Genome annotation databases

EnsembliENSDART00000100998; ENSDARP00000091770; ENSDARG00000015536
ENSDART00000150068; ENSDARP00000124730; ENSDARG00000015536
ENSDART00000185161; ENSDARP00000156079; ENSDARG00000015536
ENSDART00000193058; ENSDARP00000150954; ENSDARG00000015536
GeneIDi567154
KEGGidre:567154

Organism-specific databases

Comparative Toxicogenomics Database

More...CTDi		55553
ZFINiZDB-GENE-081120-6 sox6

Phylogenomic databases

eggNOGiKOG0528 Eukaryota
ENOG410YZNG LUCA
GeneTreeiENSGT00940000156433
HOGENOMiHOG000056455
InParanoidiF8W2H3
KOiK09269
OrthoDBi465521at2759
TreeFamiTF320471

Enzyme and pathway databases

ReactomeiR-DRE-3769402 Deactivation of the beta-catenin transactivating complex

Gene expression databases

BgeeiENSDARG00000015536 Expressed in 28 organ(s), highest expression level in embryo
ExpressionAtlasiF8W2H3 baseline

Family and domain databases

Gene3Di1.10.30.10, 1 hit
InterProiView protein in InterPro
IPR009071 HMG_box_dom
IPR036910 HMG_box_dom_sf
IPR027153 SOX-5/6
PANTHERiPTHR45789:SF1 PTHR45789:SF1, 2 hits
PfamiView protein in Pfam
PF00505 HMG_box, 1 hit
SMARTiView protein in SMART
SM00398 HMG, 1 hit
SUPFAMiSSF47095 SSF47095, 1 hit
PROSITEiView protein in PROSITE
PS50118 HMG_BOX_2, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...ProtoNeti		Search...

MobiDB: a database of protein disorder and mobility annotations

More...MobiDBi		Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the ‘Entry information’ section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiF8W2H3_DANRE
<p>This subsection of the ‘Entry information’ section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called ‘Primary (citable) accession number’.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: F8W2H3
Secondary accession number(s): B2CNY6, F6NZ61
<p>This subsection of the ‘Entry information’ section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification (‘Last modified’). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/TrEMBL: September 21, 2011
Last sequence update: November 30, 2016
Last modified: October 16, 2019
This is version 70 of the entry and version 2 of the sequence. See complete history.
<p>This subsection of the ‘Entry information’ section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiUnreviewed (UniProtKB/TrEMBL)

<p>This section contains any relevant information that doesn’t fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Complete proteome, Proteomics identificationCombined sources, Reference proteomeImported
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