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    NKX2-1 NK2 homeobox 1 [ Sus scrofa (pig) ]

    Gene ID: 100154384, updated on 17-Aug-2024

    Summary

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    Official Symbol
    NKX2-1provided by VGNC
    Official Full Name
    NK2 homeobox 1provided by VGNC
    Primary source
    VGNC:VGNC:90767
    See related
    Ensembl:ENSSSCG00000001945
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Sus scrofa
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Suina; Suidae; Sus
    Also known as
    TTF1
    Expression
    Biased expression in lung (RPKM 27.6) and mixtures (RPKM 4.7) See more
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    chromosome: 7
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    106 current Sscrofa11.1 (GCF_000003025.6) 7 NC_010449.5 (63487200..63491580)
    105 previous assembly Sscrofa10.2 (GCF_000003025.5) 7 NC_010449.4 (68395821..68400133)

    Chromosome 7 - NC_010449.5Genomic Context describing neighboring genes Neighboring gene NK2 homeobox 8 Neighboring gene uncharacterized LOC110261715 Neighboring gene uncharacterized LOC102161914 Neighboring gene uncharacterized LOC110261570 Neighboring gene MAP3K12 binding inhibitory protein 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Transcriptome data used for gene annotation Transcriptome data used for gene annotation
    • Description: Nine kinds of tissues and a mixture of multiple tissues were sequenced for genome annotation
    • BioProject: PRJNA311523
    • Publication: PMID 27646534
    • Analysis date: Thu Dec 14 17:10:49 2017

    Bibliography

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    Related articles in PubMed

    1. Porcine gene discovery by normalized cDNA-library sequencing and EST cluster assembly. Fahrenkrug SC, et al. Mamm Genome, 2002 Aug. PMID 12226715
    2. Porcine transcriptome analysis based on 97 non-normalized cDNA libraries and assembly of 1,021,891 expressed sequence tags. Gorodkin J, et al. Genome Biol, 2007. PMID 17407547, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in cell differentiation IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    homeobox protein Nkx-2.1
    Names
    RNA polymerase I transcription termination factor
    thyroid transcription factor 1-like

    NCBI Reference Sequences (RefSeq)

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    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_001311186.1 → NP_001298115.1  homeobox protein Nkx-2.1 isoform 1

      Status: PROVISIONAL

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      AEMK02000056
      UniProtKB/TrEMBL
      A0A287BE97, A0A4X1TCH0, A0A8D0KHX9
      Related
      ENSSSCP00000054869.1, ENSSSCT00000058101.1
      Conserved Domains (1) summary
      pfam00046
      Location:194 → 247
      Homeobox; Homeobox domain

    2. NM_001311187.1 → NP_001298116.1  homeobox protein Nkx-2.1 isoform 2

      Status: PROVISIONAL

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and coding region compared to variant 1. The encoded isoform (2) has a shorter N-terminus compared to isoform 1.
      Source sequence(s)
      AEMK02000056
      UniProtKB/TrEMBL
      A0A4X1TDB1, A0A8D0KHX9
      Conserved Domains (1) summary
      pfam00046
      Location:164 → 217
      Homeobox; Homeobox domain

    RefSeqs of Annotated Genomes: Sus scrofa Annotation Release 106 details...Open this link in a new tab

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

    Reference Sscrofa11.1 Primary Assembly

    Genomic

    1. NC_010449.5 Reference Sscrofa11.1 Primary Assembly

      Range
      63487200..63491580
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005666203.3 → XP_005666260.1  homeobox protein Nkx-2.1 isoform X2

      UniProtKB/TrEMBL
      A0A4X1TDB1, A0A8D0KHX9
      Conserved Domains (1) summary
      pfam00046
      Location:164 → 217
      Homeobox; Homeobox domain

    2. XM_021098030.1 → XP_020953689.1  homeobox protein Nkx-2.1 isoform X1

      UniProtKB/TrEMBL
      A0A8D0KHX9
      Conserved Domains (1) summary
      pfam00046
      Location:215 → 268
      Homeobox; Homeobox domain
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

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