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    Neo1 neogenin 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 81735, updated on 27-Nov-2024

    Summary

    Official Symbol
    Neo1provided by RGD
    Official Full Name
    neogenin 1provided by RGD
    Primary source
    RGD:619837
    See related
    EnsemblRapid:ENSRNOG00000006490 AllianceGenome:RGD:619837
    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
    Summary
    Predicted to enable several functions, including BMP receptor binding activity; cadherin binding activity; and co-receptor binding activity. Predicted to be involved in cell-cell adhesion; generation of neurons; and trans-synaptic signaling, modulating synaptic transmission. Predicted to act upstream of or within several processes, including multicellular organismal-level iron ion homeostasis; myoblast fusion; and positive regulation of BMP signaling pathway. Located in neuronal cell body. Orthologous to human NEO1 (neogenin 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Brain (RPKM 120.0), Kidney (RPKM 120.0) and 9 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Neo1 in Genome Data Viewer
    Location:
    8q24
    Exon count:
    29
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (68169711..68322158, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (59273860..59426486, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (63649871..63756394, complement)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene nucleophosmin-like Neighboring gene REC114 meiotic recombination protein Neighboring gene hyperpolarization activated cyclic nucleotide-gated potassium channel 4 Neighboring gene uncharacterized LOC134479976 Neighboring gene ribosomal protein S2, pseudogene 27

    Genomic regions, transcripts, and products

    Expression

    • Project title: 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables BMP receptor binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables BMP receptor binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables cadherin binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables cadherin binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables co-receptor binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables co-receptor 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 axon guidance IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in cell-cell adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in intracellular iron ion homeostasis IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within intracellular iron ion homeostasis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in multicellular organismal-level iron ion homeostasis IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within multicellular organismal-level iron ion homeostasis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in myoblast fusion IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within myoblast fusion ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of axon regeneration IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within negative regulation of axon regeneration ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of protein secretion IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within negative regulation of protein secretion ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in neuron migration IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in positive regulation of BMP signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within positive regulation of BMP signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein secretion IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of protein secretion ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within regulation of axon regeneration ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in trans-synaptic signaling, modulating synaptic transmission IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in trans-synaptic signaling, modulating synaptic transmission ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    located_in Golgi apparatus IEA
    Inferred from Electronic Annotation
    more info
     
    located_in Golgi apparatus ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in cell surface IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cell surface IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cell surface ISO
    Inferred from Sequence Orthology
    more info
     
    located_in glutamatergic synapse IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in glutamatergic synapse ISO
    Inferred from Sequence Orthology
    more info
     
    located_in growth cone IEA
    Inferred from Electronic Annotation
    more info
     
    located_in growth cone ISO
    Inferred from Sequence Orthology
    more info
     
    located_in intracellular vesicle IEA
    Inferred from Electronic Annotation
    more info
     
    located_in intracellular vesicle ISO
    Inferred from Sequence Orthology
    more info
     
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in membrane ISO
    Inferred from Sequence Orthology
    more info
     
    located_in neuronal cell body IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     
    part_of plasma membrane protein complex IEA
    Inferred from Electronic Annotation
    more info
     
    part_of plasma membrane protein complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in postsynaptic density membrane IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in postsynaptic density membrane ISO
    Inferred from Sequence Orthology
    more info
     

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001419532.1NP_001406461.1  neogenin precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/TrEMBL
      A0A8I5ZV53
      Related
      ENSRNOP00000082559.1, ENSRNOT00000103674.2

    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
      68169711..68322158 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039082421.2XP_038938349.1  neogenin isoform X13

      UniProtKB/Swiss-Prot
      P97603
      Conserved Domains (7) summary
      smart00060
      Location:645724
      FN3; Fibronectin type 3 domain
      cd00063
      Location:445534
      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 ...
      pfam06583
      Location:10641367
      Neogenin_C; Neogenin C-terminus
      cd00096
      Location:263266
      Ig; Ig strand A [structural motif]
      cd05722
      Location:63159
      IgI_1_Neogenin_like; First immunoglobulin (Ig)-like domain in neogenin, and similar domains; member of the I-set of Ig superfamily (IgSF) domains
      cd05723
      Location:355438
      IgI_4_Neogenin_like; Fourth immunoglobulin (Ig)-like domain in neogenin, and similar domains; member of the I-set of Ig superfamily (IgSF) domains
      cl11960
      Location:263348
      Ig; Immunoglobulin domain
    2. XM_063266212.1XP_063122282.1  neogenin isoform X7

    3. XM_063266211.1XP_063122281.1  neogenin isoform X6

    4. XM_039082417.2XP_038938345.1  neogenin isoform X5

      UniProtKB/Swiss-Prot
      P97603
      Conserved Domains (7) summary
      smart00060
      Location:750829
      FN3; Fibronectin type 3 domain
      cd00063
      Location:550639
      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 ...
      pfam06583
      Location:11581461
      Neogenin_C; Neogenin C-terminus
      cd00096
      Location:263266
      Ig; Ig strand A [structural motif]
      cd05722
      Location:63159
      IgI_1_Neogenin_like; First immunoglobulin (Ig)-like domain in neogenin, and similar domains; member of the I-set of Ig superfamily (IgSF) domains
      cd05723
      Location:355438
      IgI_4_Neogenin_like; Fourth immunoglobulin (Ig)-like domain in neogenin, and similar domains; member of the I-set of Ig superfamily (IgSF) domains
      cl11960
      Location:263348
      Ig; Immunoglobulin domain
    5. XM_039082419.2XP_038938347.1  neogenin isoform X11

      UniProtKB/Swiss-Prot
      P97603
      Conserved Domains (7) summary
      smart00060
      Location:750829
      FN3; Fibronectin type 3 domain
      cd00063
      Location:550639
      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 ...
      pfam06583
      Location:11691419
      Neogenin_C; Neogenin C-terminus
      cd00096
      Location:268272
      Ig; Ig strand A' [structural motif]
      cd05722
      Location:63159
      IgI_1_Neogenin_like; First immunoglobulin (Ig)-like domain in neogenin, and similar domains; member of the I-set of Ig superfamily (IgSF) domains
      cd05723
      Location:355438
      IgI_4_Neogenin_like; Fourth immunoglobulin (Ig)-like domain in neogenin, and similar domains; member of the I-set of Ig superfamily (IgSF) domains
      cl11960
      Location:265348
      Ig; Immunoglobulin domain
    6. XM_039082415.2XP_038938343.1  neogenin isoform X3

      UniProtKB/Swiss-Prot
      P97603
      Conserved Domains (7) summary
      smart00060
      Location:750829
      FN3; Fibronectin type 3 domain
      cd00063
      Location:550639
      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 ...
      pfam06583
      Location:11691472
      Neogenin_C; Neogenin C-terminus
      cd00096
      Location:263266
      Ig; Ig strand A [structural motif]
      cd05722
      Location:63159
      IgI_1_Neogenin_like; First immunoglobulin (Ig)-like domain in neogenin, and similar domains; member of the I-set of Ig superfamily (IgSF) domains
      cd05723
      Location:355438
      IgI_4_Neogenin_like; Fourth immunoglobulin (Ig)-like domain in neogenin, and similar domains; member of the I-set of Ig superfamily (IgSF) domains
      cl11960
      Location:263348
      Ig; Immunoglobulin domain
    7. XM_063266216.1XP_063122286.1  neogenin isoform X12

      UniProtKB/TrEMBL
      A0A8I5ZQS8
    8. XM_039082416.2XP_038938344.1  neogenin isoform X4

      UniProtKB/Swiss-Prot
      P97603
      Conserved Domains (7) summary
      smart00060
      Location:770849
      FN3; Fibronectin type 3 domain
      cd00063
      Location:570659
      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 ...
      pfam06583
      Location:11621465
      Neogenin_C; Neogenin C-terminus
      cd00096
      Location:263266
      Ig; Ig strand A [structural motif]
      cd05722
      Location:63159
      IgI_1_Neogenin_like; First immunoglobulin (Ig)-like domain in neogenin, and similar domains; member of the I-set of Ig superfamily (IgSF) domains
      cd05723
      Location:355438
      IgI_4_Neogenin_like; Fourth immunoglobulin (Ig)-like domain in neogenin, and similar domains; member of the I-set of Ig superfamily (IgSF) domains
      cl11960
      Location:263348
      Ig; Immunoglobulin domain
    9. XM_063266214.1XP_063122284.1  neogenin isoform X10

    10. XM_039082414.2XP_038938342.1  neogenin isoform X2

      UniProtKB/Swiss-Prot
      P97603
      Conserved Domains (7) summary
      smart00060
      Location:770849
      FN3; Fibronectin type 3 domain
      cd00063
      Location:570659
      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 ...
      pfam06583
      Location:11731476
      Neogenin_C; Neogenin C-terminus
      cd00096
      Location:263266
      Ig; Ig strand A [structural motif]
      cd05722
      Location:63159
      IgI_1_Neogenin_like; First immunoglobulin (Ig)-like domain in neogenin, and similar domains; member of the I-set of Ig superfamily (IgSF) domains
      cd05723
      Location:355438
      IgI_4_Neogenin_like; Fourth immunoglobulin (Ig)-like domain in neogenin, and similar domains; member of the I-set of Ig superfamily (IgSF) domains
      cl11960
      Location:263348
      Ig; Immunoglobulin domain
    11. XM_063266213.1XP_063122283.1  neogenin isoform X9

    12. XM_039082413.2XP_038938341.1  neogenin isoform X1

      UniProtKB/Swiss-Prot
      P97603
      UniProtKB/TrEMBL
      A0A8I5Y1H5
      Related
      ENSRNOP00000077374.1, ENSRNOT00000117001.2
      Conserved Domains (7) summary
      smart00060
      Location:770849
      FN3; Fibronectin type 3 domain
      cd00063
      Location:570659
      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 ...
      pfam06583
      Location:11781481
      Neogenin_C; Neogenin C-terminus
      cd00096
      Location:263266
      Ig; Ig strand A [structural motif]
      cd05722
      Location:63159
      IgI_1_Neogenin_like; First immunoglobulin (Ig)-like domain in neogenin, and similar domains; member of the I-set of Ig superfamily (IgSF) domains
      cd05723
      Location:355438
      IgI_4_Neogenin_like; Fourth immunoglobulin (Ig)-like domain in neogenin, and similar domains; member of the I-set of Ig superfamily (IgSF) domains
      cl11960
      Location:263348
      Ig; Immunoglobulin domain
    13. XM_039082418.2XP_038938346.1  neogenin isoform X8

      UniProtKB/Swiss-Prot
      P97603
      Related
      ENSRNOP00000009496.8, ENSRNOT00000009496.9
      Conserved Domains (7) summary
      smart00060
      Location:770849
      FN3; Fibronectin type 3 domain
      cd00063
      Location:570659
      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 ...
      pfam06583
      Location:11891439
      Neogenin_C; Neogenin C-terminus
      cd00096
      Location:268272
      Ig; Ig strand A' [structural motif]
      cd05722
      Location:63159
      IgI_1_Neogenin_like; First immunoglobulin (Ig)-like domain in neogenin, and similar domains; member of the I-set of Ig superfamily (IgSF) domains
      cd05723
      Location:355438
      IgI_4_Neogenin_like; Fourth immunoglobulin (Ig)-like domain in neogenin, and similar domains; member of the I-set of Ig superfamily (IgSF) domains
      cl11960
      Location:265348
      Ig; Immunoglobulin domain

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001191881.1: Suppressed sequence

      Description
      NM_001191881.1: This RefSeq was temporarily suppressed because currently there is not sufficient data to support this transcript.