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    NEO1 neogenin 1 [ Homo sapiens (human) ]

    Gene ID: 4756, updated on 9-Dec-2024

    Summary

    Official Symbol
    NEO1provided by HGNC
    Official Full Name
    neogenin 1provided by HGNC
    Primary source
    HGNC:HGNC:7754
    See related
    Ensembl:ENSG00000067141 MIM:601907; AllianceGenome:HGNC:7754
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    NGN; IGDCC2; NTN1R2
    Summary
    This gene encodes a cell surface protein that is a member of the immunoglobulin superfamily. The encoded protein consists of four N-terminal immunoglobulin-like domains, six fibronectin type III domains, a transmembrane domain and a C-terminal internal domain that shares homology with the tumor suppressor candidate gene DCC. This protein may be involved in cell growth and differentiation and in cell-cell adhesion. Defects in this gene are associated with cell proliferation in certain cancers. Alternate splicing results in multiple transcript variants. [provided by RefSeq, Feb 2010]
    Expression
    Broad expression in colon (RPKM 23.2), skin (RPKM 16.0) and 23 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See NEO1 in Genome Data Viewer
    Location:
    15q24.1
    Exon count:
    30
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (73051692..73305206)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (70868937..71122333)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (73344243..73597546)

    Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107984801 Neighboring gene NANOG hESC enhancer GRCh37_chr15:73127371-73127872 Neighboring gene MPRA-validated peak2382 silencer Neighboring gene nucleophosmin 1 pseudogene 42 Neighboring gene ReSE screen-validated silencer GRCh37_chr15:73304580-73304795 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6628 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6629 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6630 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6631 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr15:73457693-73458892 Neighboring gene FKBP prolyl isomerase 1A pseudogene 2 Neighboring gene nucleophosmin 1 pseudogene 43 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr15:73517560-73518759 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6632 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:73617084-73617584 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:73617585-73618085 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:73622233-73623136 Neighboring gene microRNA 12135 Neighboring gene uncharacterized LOC105370890 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr15:73635762-73636961 Neighboring gene MPRA-validated peak2386 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:73644210-73644710 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:73644711-73645211 Neighboring gene Sharpr-MPRA regulatory region 342 Neighboring gene VISTA enhancer hs2161 Neighboring gene serine-aspartate repeat-containing protein I-like Neighboring gene hyperpolarization activated cyclic nucleotide gated potassium channel 4

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    HIV-1 interactions

    Replication interactions

    Interaction Pubs
    HIV-1 infection (VSV-G pseudotyped) of CEMT4 T cells downregulates plasma membrane expression of NEO1 PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • DKFZp547A066, DKFZp547B146

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables BMP receptor binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables cadherin binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables co-receptor binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables signaling receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    involved_in axon guidance IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in cell adhesion NAS
    Non-traceable Author Statement
    more info
    PubMed 
    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 multicellular organismal-level iron ion homeostasis IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in myoblast fusion IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of axon regeneration IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of protein secretion IEA
    Inferred from Electronic Annotation
    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
     
    involved_in protein secretion IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in trans-synaptic signaling, modulating synaptic transmission IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    located_in Golgi apparatus IDA
    Inferred from Direct Assay
    more info
     
    is_active_in cell surface IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in glutamatergic synapse IEA
    Inferred from Electronic Annotation
    more info
     
    located_in intracellular vesicle IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
     
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
     
    part_of plasma membrane protein complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in postsynaptic density membrane IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    neogenin
    Names
    immunoglobulin superfamily DCC subclass member 2
    neogenin homolog 1

    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.

    Genomic

    1. NG_016965.1 RefSeqGene

      Range
      4980..257722
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001172623.2NP_001166094.1  neogenin isoform 2 precursor

      See identical proteins and their annotated locations for NP_001166094.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an in-frame exon in the coding region, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
      Source sequence(s)
      AC068397, AC104420, AC129980
      Consensus CDS
      CCDS53957.1
      Related
      ENSP00000453317.1, ENST00000560262.5
      Conserved Domains (9) summary
      cd05722
      Location:54148
      Ig1_Neogenin; First immunoglobulin (Ig)-like domain in neogenin and similar proteins
      smart00408
      Location:262326
      IGc2; Immunoglobulin C-2 Type
      cd05723
      Location:357427
      Ig4_Neogenin; Fourth immunoglobulin (Ig)-like domain in neogenin and similar proteins
      smart00060
      Location:739818
      FN3; Fibronectin type 3 domain
      smart00410
      Location:158239
      IG_like; Immunoglobulin like
      cd00063
      Location:539628
      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 ...
      pfam07679
      Location:341427
      I-set; Immunoglobulin I-set domain
      pfam06583
      Location:11581408
      Neogenin_C; Neogenin C-terminus
      pfam13895
      Location:157239
      Ig_2; Immunoglobulin domain
    2. NM_001172624.2NP_001166095.1  neogenin isoform 3 precursor

      See identical proteins and their annotated locations for NP_001166095.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks an in-frame exon in the coding region, compared to variant 1. The encoded isoform (3) is shorter than isoform 1.
      Source sequence(s)
      AC068397, AC104420, AC129980
      Consensus CDS
      CCDS58378.1
      Related
      ENSP00000453200.1, ENST00000558964.5
      Conserved Domains (9) summary
      cd05722
      Location:54148
      Ig1_Neogenin; First immunoglobulin (Ig)-like domain in neogenin and similar proteins
      smart00408
      Location:262326
      IGc2; Immunoglobulin C-2 Type
      cd05723
      Location:357427
      Ig4_Neogenin; Fourth immunoglobulin (Ig)-like domain in neogenin and similar proteins
      smart00060
      Location:739818
      FN3; Fibronectin type 3 domain
      smart00410
      Location:158239
      IG_like; Immunoglobulin like
      cd00063
      Location:539628
      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 ...
      pfam07679
      Location:341427
      I-set; Immunoglobulin I-set domain
      pfam06583
      Location:11471450
      Neogenin_C; Neogenin C-terminus
      pfam13895
      Location:157239
      Ig_2; Immunoglobulin domain
    3. NM_001419531.1NP_001406460.1  neogenin isoform 4 precursor

      Status: REVIEWED

      Source sequence(s)
      AC068397, AC104420, AC129980
    4. NM_002499.4NP_002490.2  neogenin isoform 1 precursor

      See identical proteins and their annotated locations for NP_002490.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AB209412, AC129980, AL355708, BC117161, DB458571
      Consensus CDS
      CCDS10247.1
      UniProtKB/Swiss-Prot
      B7ZKM9, B7ZKN0, O00340, Q17RX1, Q92859
      Related
      ENSP00000261908.6, ENST00000261908.11
      Conserved Domains (9) summary
      cd05722
      Location:54148
      Ig1_Neogenin; First immunoglobulin (Ig)-like domain in neogenin and similar proteins
      smart00408
      Location:262326
      IGc2; Immunoglobulin C-2 Type
      cd05723
      Location:357427
      Ig4_Neogenin; Fourth immunoglobulin (Ig)-like domain in neogenin and similar proteins
      smart00060
      Location:739818
      FN3; Fibronectin type 3 domain
      smart00410
      Location:158239
      IG_like; Immunoglobulin like
      cd00063
      Location:539628
      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 ...
      pfam07679
      Location:341427
      I-set; Immunoglobulin I-set domain
      pfam06583
      Location:11581461
      Neogenin_C; Neogenin C-terminus
      pfam13895
      Location:157239
      Ig_2; Immunoglobulin domain

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000015.10 Reference GRCh38.p14 Primary Assembly

      Range
      73051692..73305206
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047432591.1XP_047288547.1  neogenin isoform X5

    2. XM_011521628.3XP_011519930.1  neogenin isoform X1

      See identical proteins and their annotated locations for XP_011519930.1

      Conserved Domains (9) summary
      cd05722
      Location:54148
      Ig1_Neogenin; First immunoglobulin (Ig)-like domain in neogenin and similar proteins
      smart00408
      Location:262326
      IGc2; Immunoglobulin C-2 Type
      cd05723
      Location:357427
      Ig4_Neogenin; Fourth immunoglobulin (Ig)-like domain in neogenin and similar proteins
      smart00060
      Location:759838
      FN3; Fibronectin type 3 domain
      smart00410
      Location:158239
      IG_like; Immunoglobulin like
      cd00063
      Location:559648
      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 ...
      pfam07679
      Location:341427
      I-set; Immunoglobulin I-set domain
      pfam06583
      Location:11781481
      Neogenin_C; Neogenin C-terminus
      pfam13895
      Location:157239
      Ig_2; Immunoglobulin domain
    3. XM_011521633.4XP_011519935.1  neogenin isoform X11

      Conserved Domains (9) summary
      cd05722
      Location:54148
      Ig1_Neogenin; First immunoglobulin (Ig)-like domain in neogenin and similar proteins
      smart00408
      Location:262326
      IGc2; Immunoglobulin C-2 Type
      cd05723
      Location:357427
      Ig4_Neogenin; Fourth immunoglobulin (Ig)-like domain in neogenin and similar proteins
      smart00060
      Location:759838
      FN3; Fibronectin type 3 domain
      smart00410
      Location:158239
      IG_like; Immunoglobulin like
      cd00063
      Location:559648
      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 ...
      pfam07679
      Location:341427
      I-set; Immunoglobulin I-set domain
      pfam06583
      Location:11781428
      Neogenin_C; Neogenin C-terminus
      pfam13895
      Location:157239
      Ig_2; Immunoglobulin domain
    4. XM_011521629.3XP_011519931.1  neogenin isoform X2

      Conserved Domains (9) summary
      cd05722
      Location:54148
      Ig1_Neogenin; First immunoglobulin (Ig)-like domain in neogenin and similar proteins
      smart00408
      Location:262326
      IGc2; Immunoglobulin C-2 Type
      cd05723
      Location:357427
      Ig4_Neogenin; Fourth immunoglobulin (Ig)-like domain in neogenin and similar proteins
      smart00060
      Location:759838
      FN3; Fibronectin type 3 domain
      smart00410
      Location:158239
      IG_like; Immunoglobulin like
      cd00063
      Location:559648
      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 ...
      pfam07679
      Location:341427
      I-set; Immunoglobulin I-set domain
      pfam06583
      Location:11671470
      Neogenin_C; Neogenin C-terminus
      pfam13895
      Location:157239
      Ig_2; Immunoglobulin domain
    5. XM_017022233.2XP_016877722.1  neogenin isoform X12

    6. XM_011521632.3XP_011519934.1  neogenin isoform X7

      Conserved Domains (9) summary
      cd05722
      Location:54148
      Ig1_Neogenin; First immunoglobulin (Ig)-like domain in neogenin and similar proteins
      smart00408
      Location:262326
      IGc2; Immunoglobulin C-2 Type
      cd05723
      Location:357427
      Ig4_Neogenin; Fourth immunoglobulin (Ig)-like domain in neogenin and similar proteins
      smart00060
      Location:759838
      FN3; Fibronectin type 3 domain
      smart00410
      Location:158239
      IG_like; Immunoglobulin like
      cd00063
      Location:559648
      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 ...
      pfam07679
      Location:341427
      I-set; Immunoglobulin I-set domain
      pfam06583
      Location:11441447
      Neogenin_C; Neogenin C-terminus
      pfam13895
      Location:157239
      Ig_2; Immunoglobulin domain
    7. XM_017022237.2XP_016877726.1  neogenin isoform X18

    8. XM_011521630.3XP_011519932.1  neogenin isoform X3

      Conserved Domains (9) summary
      cd05722
      Location:54148
      Ig1_Neogenin; First immunoglobulin (Ig)-like domain in neogenin and similar proteins
      smart00408
      Location:262326
      IGc2; Immunoglobulin C-2 Type
      cd05723
      Location:357427
      Ig4_Neogenin; Fourth immunoglobulin (Ig)-like domain in neogenin and similar proteins
      smart00060
      Location:759838
      FN3; Fibronectin type 3 domain
      smart00410
      Location:158239
      IG_like; Immunoglobulin like
      cd00063
      Location:559648
      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 ...
      pfam07679
      Location:341427
      I-set; Immunoglobulin I-set domain
      pfam06583
      Location:11621465
      Neogenin_C; Neogenin C-terminus
      pfam13895
      Location:157239
      Ig_2; Immunoglobulin domain
    9. XM_017022234.2XP_016877723.1  neogenin isoform X13

    10. XM_047432587.1XP_047288543.1  neogenin isoform X5

    11. XM_047432595.1XP_047288551.1  neogenin isoform X16

    12. XM_047432590.1XP_047288546.1  neogenin isoform X10

    13. XM_047432586.1XP_047288542.1  neogenin isoform X4

      UniProtKB/Swiss-Prot
      B7ZKM9, B7ZKN0, O00340, Q17RX1, Q92859
      Related
      ENSP00000341198.5, ENST00000339362.9
    14. XM_047432593.1XP_047288549.1  neogenin isoform X15

    15. XM_047432596.1XP_047288552.1  neogenin isoform X17

    16. XM_047432589.1XP_047288545.1  neogenin isoform X8

    17. XM_017022231.2XP_016877720.1  neogenin isoform X9

    18. XM_047432598.1XP_047288554.1  neogenin isoform X19

    19. XM_047432592.1XP_047288548.1  neogenin isoform X14

    20. XM_047432600.1XP_047288556.1  neogenin isoform X20

    21. XM_017022232.2XP_016877721.1  neogenin isoform X5

      Conserved Domains (8) summary
      smart00060
      Location:759838
      FN3; Fibronectin type 3 domain
      smart00409
      Location:158239
      IG; Immunoglobulin
      cd00063
      Location:559648
      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:11511454
      Neogenin_C; Neogenin C-terminus
      pfam07679
      Location:250337
      I-set; Immunoglobulin I-set domain
      cd00096
      Location:252255
      Ig; Ig strand A [structural motif]
      cd05722
      Location:52148
      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:344427
      IgI_4_Neogenin_like; Fourth immunoglobulin (Ig)-like domain in neogenin, and similar domains; member of the I-set of Ig superfamily (IgSF) domains
    22. XM_047432599.1XP_047288555.1  neogenin isoform X16

    23. XM_047432594.1XP_047288550.1  neogenin isoform X8

    24. XM_047432597.1XP_047288553.1  neogenin isoform X9

    25. XM_047432601.1XP_047288557.1  neogenin isoform X21

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060939.1 Alternate T2T-CHM13v2.0

      Range
      70868937..71122333
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054378047.1XP_054234022.1  neogenin isoform X9

    2. XM_054378030.1XP_054234005.1  neogenin isoform X5

    3. XM_054378040.1XP_054234015.1  neogenin isoform X5

    4. XM_054378050.1XP_054234025.1  neogenin isoform X16

    5. XM_054378044.1XP_054234019.1  neogenin isoform X8

    6. XM_054378026.1XP_054234001.1  neogenin isoform X1

    7. XM_054378037.1XP_054234012.1  neogenin isoform X11

    8. XM_054378027.1XP_054234002.1  neogenin isoform X2

    9. XM_054378039.1XP_054234014.1  neogenin isoform X12

    10. XM_054378032.1XP_054234007.1  neogenin isoform X7

    11. XM_054378048.1XP_054234023.1  neogenin isoform X18

    12. XM_054378028.1XP_054234003.1  neogenin isoform X3

    13. XM_054378041.1XP_054234016.1  neogenin isoform X13

    14. XM_054378045.1XP_054234020.1  neogenin isoform X16

    15. XM_054378036.1XP_054234011.1  neogenin isoform X10

    16. XM_054378029.1XP_054234004.1  neogenin isoform X4

      UniProtKB/Swiss-Prot
      B7ZKM9, B7ZKN0, O00340, Q17RX1, Q92859
    17. XM_054378043.1XP_054234018.1  neogenin isoform X15

    18. XM_054378046.1XP_054234021.1  neogenin isoform X17

    19. XM_054378033.1XP_054234008.1  neogenin isoform X8

    20. XM_054378035.1XP_054234010.1  neogenin isoform X9

    21. XM_054378049.1XP_054234024.1  neogenin isoform X19

    22. XM_054378042.1XP_054234017.1  neogenin isoform X14

    23. XM_054378051.1XP_054234026.1  neogenin isoform X20

    24. XM_054378038.1XP_054234013.1  neogenin isoform X5

    25. XM_054378052.1XP_054234027.1  neogenin isoform X21