U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    NISCH nischarin [ Sus scrofa (pig) ]

    Gene ID: 100156417, updated on 17-Aug-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    NISCHprovided by VGNC
    Official Full Name
    nischarinprovided by VGNC
    Primary source
    VGNC:VGNC:107159
    See related
    Ensembl:ENSSSCG00000011442
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Sus scrofa
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Suina; Suidae; Sus
    Expression
    Ubiquitous expression in ovary (RPKM 22.3), subcutaneous adipose (RPKM 17.3) and 8 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See NISCH in Genome Data Viewer
    Location:
    chromosome: 13
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    106 current Sscrofa11.1 (GCF_000003025.6) 13 NC_010455.5 (34595788..34630306)
    105 previous assembly Sscrofa10.2 (GCF_000003025.5) 13 NC_010455.4 (37809589..37844045)

    Chromosome 13 - NC_010455.5Genomic Context describing neighboring genes Neighboring gene semaphorin 3G Neighboring gene troponin C1, slow skeletal and cardiac type Neighboring gene stabilin 1 Neighboring gene 5'-nucleotidase domain containing 2 Neighboring gene small integral membrane protein 4

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. PEDE (Pig EST Data Explorer) has been expanded into Pig Expression Data Explorer, including 10 147 porcine full-length cDNA sequences. Uenishi H, et al. Nucleic Acids Res, 2007 Jan. PMID 17145712, Free PMC Article
    2. PEDE (Pig EST Data Explorer): construction of a database for ESTs derived from porcine full-length cDNA libraries. Uenishi H, et al. Nucleic Acids Res, 2004 Jan 1. PMID 14681463, Free PMC Article
    3. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
    4. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables integrin binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables phosphatidylinositol binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables protein kinase binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

    Go to the top of the page Help
    Preferred Names
    nischarin

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_010455.5 Reference Sscrofa11.1 Primary Assembly

      Range
      34595788..34630306
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_001925354.5 → XP_001925389.1  nischarin isoform X2

      UniProtKB/TrEMBL
      A0A4X1VP08, A0A5G2RKR1, A0A8D0Q837, A0A8D0Y721, A0A8D1NZF5
      Related
      ENSSSCP00000072757.2, ENSSSCT00000070171.2
      Conserved Domains (5) summary
      cd06875
      Location:15 → 130
      PX_IRAS; The phosphoinositide binding Phox Homology domain of the Imidazoline Receptor Antisera-Selected
      cd00116
      Location:289 → 416
      LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
      sd00033
      Location:290 → 312
      LRR_RI; leucine-rich repeat [structural motif]
      pfam03957
      Location:1038 → 1146
      Jun; Jun-like transcription factor
      pfam13855
      Location:334 → 390
      LRR_8; Leucine rich repeat

    2. XM_005669637.3 → XP_005669694.1  nischarin isoform X5

      UniProtKB/TrEMBL
      A0A4X1VN45, F1SIW1
      Related
      ENSSSCP00000012194.4, ENSSSCT00000012522.5
      Conserved Domains (4) summary
      cd06875
      Location:15 → 130
      PX_IRAS; The phosphoinositide binding Phox Homology domain of the Imidazoline Receptor Antisera-Selected
      cd00116
      Location:289 → 416
      LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
      sd00033
      Location:290 → 312
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:334 → 390
      LRR_8; Leucine rich repeat

    3. XM_021068899.1 → XP_020924558.1  nischarin isoform X3

      UniProtKB/TrEMBL
      A0A8D1NVU5
      Conserved Domains (3) summary
      COG4886
      Location:45 → 174
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:45 → 67
      LRR_RI; leucine-rich repeat [structural motif]
      cl25756
      Location:777 → 908
      BASP1; Brain acid soluble protein 1 (BASP1 protein)

    4. XM_005669635.3 → XP_005669692.1  nischarin isoform X1

      UniProtKB/TrEMBL
      A0A8D0Q837, A0A8D0QZP5, A0A8D0Y721, A0A8D1NZF5
      Conserved Domains (5) summary
      cd06875
      Location:15 → 130
      PX_IRAS; The phosphoinositide binding Phox Homology domain of the Imidazoline Receptor Antisera-Selected
      cd00116
      Location:289 → 416
      LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
      sd00033
      Location:290 → 312
      LRR_RI; leucine-rich repeat [structural motif]
      pfam03957
      Location:1038 → 1148
      Jun; Jun-like transcription factor
      pfam13855
      Location:334 → 390
      LRR_8; Leucine rich repeat

    5. XM_021068898.1 → XP_020924557.1  nischarin isoform X3

      UniProtKB/TrEMBL
      A0A8D1NVU5
      Conserved Domains (3) summary
      COG4886
      Location:45 → 174
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:45 → 67
      LRR_RI; leucine-rich repeat [structural motif]
      cl25756
      Location:777 → 908
      BASP1; Brain acid soluble protein 1 (BASP1 protein)

    6. XM_013981770.2 → XP_013837224.1  nischarin isoform X4

      UniProtKB/TrEMBL
      A0A8D1NVU5
      Conserved Domains (4) summary
      cd00116
      Location:47 → 174
      LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
      sd00033
      Location:48 → 70
      LRR_RI; leucine-rich repeat [structural motif]
      pfam03957
      Location:796 → 906
      Jun; Jun-like transcription factor
      pfam13855
      Location:92 → 148
      LRR_8; Leucine rich repeat
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.