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NYX nyctalopin [ Sus scrofa (pig) ]

Gene ID: 100620950, updated on 17-Aug-2024

Summary

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Official Symbol
NYXprovided by VGNC
Official Full Name
nyctalopinprovided by VGNC
Primary source
VGNC:VGNC:91004
See related
Ensembl:ENSSSCG00000021460
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
Broad expression in ovary (RPKM 1.6), heart (RPKM 0.7) and 7 other tissues See more
Orthologs
human mouse all
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Genomic context

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See NYX in Genome Data Viewer
Location:
chromosome: X
Exon count:
4
Annotation release Status Assembly Chr Location
106 current Sscrofa11.1 (GCF_000003025.6) X NC_010461.5 (37080197..37105513)
105 previous assembly Sscrofa10.2 (GCF_000003025.5) X NC_010461.4 (41299214..41325323)

Chromosome X - NC_010461.5Genomic Context describing neighboring genes Neighboring gene ubiquitin specific peptidase 9 X-linked Neighboring gene 60S ribosomal protein L35a pseudogene Neighboring gene DEAD-box helicase 3 X-linked Neighboring gene uncharacterized LOC110257750 Neighboring gene calcium/calmodulin dependent serine protein kinase Neighboring gene G protein-coupled receptor 34

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. 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
  2. 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

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Homology

Gene Ontology Provided by RefSeq

Function Evidence Code Pubs
enables protein binding IEA
Inferred from Electronic Annotation
more info
 PubMed 
Component Evidence Code Pubs
located_in extracellular matrix IEA
Inferred from Electronic Annotation
more info
 PubMed 
located_in extracellular space IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
LOW QUALITY PROTEIN: nyctalopin

NCBI Reference Sequences (RefSeq)

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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_010461.5 Reference Sscrofa11.1 Primary Assembly

    Range
    37080197..37105513
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_003360273.4 → XP_003360321.2  LOW QUALITY PROTEIN: nyctalopin

    UniProtKB/TrEMBL
    A0A8D0ZIV3
    Related
    ENSSSCP00000022839.3, ENSSSCT00000023085.4
    Conserved Domains (6) summary
    TIGR00864
    Location:289 → 426
    PCC; polycystin cation channel protein
    smart00082
    Location:337 → 371
    LRRCT; Leucine rich repeat C-terminal domain
    sd00031
    Location:329 → 341
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:69 → 88
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:67 → 121
    LRR_8; Leucine rich repeat
    cl26018
    Location:47 → 179
    NEL; C-terminal novel E3 ligase, LRR-interacting
Nucleotide Protein
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