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Prtg protogenin [ Rattus norvegicus (Norway rat) ]

Gene ID: 315806, updated on 17-Aug-2024

Summary

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Official Symbol
Prtgprovided by RGD
Official Full Name
protogeninprovided by RGD
Primary source
RGD:1307157
See related
EnsemblRapid:ENSRNOG00000055251 AllianceGenome:RGD:1307157
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
RGD1307157
Summary
Predicted to enable identical protein binding activity and signaling receptor activity. Predicted to be involved in axon guidance and cell adhesion. Predicted to act upstream of or within negative regulation of neurogenesis. Predicted to be located in plasma membrane. Orthologous to human PRTG (protogenin). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Liver (RPKM 12.2), Testes (RPKM 11.8) and 8 other tissues See more
Orthologs
human mouse all
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Genomic context

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Location:
8q24
Exon count:
21
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (82429106..82538612)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (73548440..73657945)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (79489790..79593806)

Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene U6 spliceosomal RNA Neighboring gene ribosomal protein S7, pseudogene 9 Neighboring gene uncharacterized LOC120094206 Neighboring gene small nucleolar RNA SNORA2/SNORA34 family Neighboring gene pygopus family PHD finger 1 Neighboring gene U6 spliceosomal RNA Neighboring gene dynein axonemal assembly factor 4

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Protogenin defines a transition stage during embryonic neurogenesis and prevents precocious neuronal differentiation. Wong YH, et al. J Neurosci, 2010 Mar 24. PMID 20335479, Free PMC Article
  2. Comparison of tear protein levels in breast cancer patients and healthy controls using a de novo proteomic approach. Böhm D, et al. Oncol Rep, 2012 Aug. PMID 22664934, Free PMC Article
  3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables identical protein binding IEA
Inferred from Electronic Annotation
more info
  
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
  
enables signaling receptor activity IEA
Inferred from Electronic Annotation
more info
  
enables signaling receptor activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in cell-cell adhesion IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in negative regulation of neurogenesis IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within negative regulation of neurogenesis ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
  
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
protogenin
Names
protein Shen-Dan
protogenin A
protogenin homolog (Gallus gallus)
shen-dan

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_001037651.2 → NP_001032740.2  protogenin precursor

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000008
    UniProtKB/Swiss-Prot
    Q2VWP9
    UniProtKB/TrEMBL
    F1LNL1
    Related
    ENSRNOP00000071092.1, ENSRNOT00000091722.3
    Conserved Domains (6) summary
    cd00063
    Location:816 → 906
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:619 → 694
    fn3; Fibronectin type III domain
    pfam07679
    Location:322 → 407
    I-set; Immunoglobulin I-set domain
    pfam13927
    Location:230 → 302
    Ig_3; Immunoglobulin domain
    cd00096
    Location:32 → 35
    Ig; Ig strand A [structural motif]
    cl11960
    Location:32 → 124
    Ig; Immunoglobulin domain

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086026.1 Reference GRCr8

    Range
    82429106..82538612
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039081517.2 → XP_038937445.1  protogenin isoform X1

    UniProtKB/Swiss-Prot
    Q2VWP9
    UniProtKB/TrEMBL
    A6KEM4
    Conserved Domains (7) summary
    smart00410
    Location:135 → 217
    IG_like; Immunoglobulin like
    cd00063
    Location:815 → 905
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:618 → 693
    fn3; Fibronectin type III domain
    pfam07679
    Location:321 → 406
    I-set; Immunoglobulin I-set domain
    pfam13927
    Location:229 → 301
    Ig_3; Immunoglobulin domain
    cd00096
    Location:32 → 35
    Ig; Ig strand A [structural motif]
    cl11960
    Location:32 → 124
    Ig; Immunoglobulin domain

  2. XM_039081518.2 → XP_038937446.1  protogenin isoform X2

    UniProtKB/Swiss-Prot
    Q2VWP9
    Conserved Domains (6) summary
    cd00063
    Location:781 → 871
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:584 → 659
    fn3; Fibronectin type III domain
    pfam07679
    Location:287 → 372
    I-set; Immunoglobulin I-set domain
    pfam13927
    Location:195 → 267
    Ig_3; Immunoglobulin domain
    cd00096
    Location:3 → 9
    Ig; Ig strand A' [structural motif]
    cl11960
    Location:1 → 89
    Ig; Immunoglobulin domain

  3. XM_039081519.2 → XP_038937447.1  protogenin isoform X3

    UniProtKB/Swiss-Prot
    Q2VWP9
    Conserved Domains (6) summary
    cd00063
    Location:646 → 736
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:449 → 524
    fn3; Fibronectin type III domain
    pfam07679
    Location:152 → 237
    I-set; Immunoglobulin I-set domain
    pfam13927
    Location:60 → 132
    Ig_3; Immunoglobulin domain
    cd00096
    Location:77 → 81
    Ig; Ig strand B [structural motif]
    cl11960
    Location:2 → 34
    Ig; Immunoglobulin domain

  4. XM_063265548.1 → XP_063121618.1  protogenin isoform X4

    UniProtKB/Swiss-Prot
    Q2VWP9

RNA

  1. XR_010053966.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q2VWP9.1 GenPept UniProtKB/Swiss-Prot:Q2VWP9

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