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syne1a spectrin repeat containing, nuclear envelope 1a [ Danio rerio (zebrafish) ]

Gene ID: 569553, updated on 2-Nov-2024

Summary

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Official Symbol
syne1aprovided by ZNC
Official Full Name
spectrin repeat containing, nuclear envelope 1aprovided by ZNC
Primary source
ZFIN:ZDB-GENE-030131-4172
See related
Ensembl:ENSDARG00000009499 AllianceGenome:ZFIN:ZDB-GENE-030131-4172
Gene type
protein coding
RefSeq status
MODEL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
wu:fc76h10; si:ch211-225l4.1; si:ch211-87a14.2
Summary
Predicted to enable actin binding activity. Predicted to be located in cytoplasm; cytoskeleton; and nuclear outer membrane. Is expressed in basal plate midbrain region; heart; and nervous system. Human ortholog(s) of this gene implicated in arthrogryposis multiplex congenita (multiple); bipolar disorder; cerebellar ataxia (multiple); and muscular dystrophy (multiple). Orthologous to human SYNE1 (spectrin repeat containing nuclear envelope protein 1). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs
all
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Genomic context

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See syne1a in Genome Data Viewer
Location:
chromosome: 20
Exon count:
147
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 20 NC_007131.7 (26095489..26359434)
105 previous assembly GRCz10 (GCF_000002035.5) 20 NC_007131.6 (26174447..26460573)

Chromosome 20 - NC_007131.7Genomic Context describing neighboring genes Neighboring gene serine active site containing 1 Neighboring gene myc target 1a Neighboring gene estrogen receptor 1 Neighboring gene acidic residue methyltransferase 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Specific inhibition of splicing factor activity by decoy RNA oligonucleotides. Denichenko P, et al. Nat Commun, 2019 Apr 8. PMID 30962446, Free PMC Article
  2. Syne2b/Nesprin-2 Is Required for Actin Organization and Epithelial Integrity During Epiboly Movement in Zebrafish. Li YL, et al. Front Cell Dev Biol, 2021. PMID 34222245, Free PMC Article
  3. Mechanism of positioning the cell nucleus in vertebrate photoreceptors. Tsujikawa M, et al. Proc Natl Acad Sci U S A, 2007 Sep 11. PMID 17785424, Free PMC Article
  4. Whole Genome Sequencing-Based Mapping and Candidate Identification of Mutations from Fixed Zebrafish Tissue. Sanchez NE, et al. G3 (Bethesda), 2017 Oct 5. PMID 28855284, Free PMC Article
  5. Revealing genes associated with vitellogenesis in the liver of the zebrafish (Danio rerio) by transcriptome profiling. Levi L, et al. BMC Genomics, 2009 Mar 31. PMID 19335895, Free PMC Article

See all (10) citations in PubMed

GeneRIFs: Gene References Into Functions

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables actin binding IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in cytoskeleton IEA
Inferred from Electronic Annotation
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
located_in nuclear envelope IEA
Inferred from Electronic Annotation
more info
  
located_in nuclear outer membrane IEA
Inferred from Electronic Annotation
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
nesprin-1; spectrin repeat containing, nuclear envelope 1a

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007131.7 Reference GRCz11 Primary Assembly

    Range
    26095489..26359434
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021468628.2 → XP_021324303.1  nesprin-1 isoform X1

    UniProtKB/TrEMBL
    A0A8M9PC75
    Related
    ENSDARP00000118057.2, ENSDART00000139350.4
    Conserved Domains (5) summary
    COG5069
    Location:37 → 300
    SAC6; Ca2+-binding actin-bundling protein fimbrin/plastin (EF-Hand superfamily) [Cytoskeleton]
    cd00176
    Location:7709 → 7924
    SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
    pfam10541
    Location:8697 → 8731
    KASH; Nuclear envelope localization domain
    cl02488
    Location:6959 → 7168
    SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
    cl25732
    Location:3843 → 4677
    SMC_N; RecF/RecN/SMC N terminal domain

  2. XM_021468629.2 → XP_021324304.1  nesprin-1 isoform X2

    UniProtKB/TrEMBL
    A0A8M9PHU3
    Conserved Domains (4) summary
    cd00176
    Location:4743 → 4958
    SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
    pfam10541
    Location:5731 → 5765
    KASH; Nuclear envelope localization domain
    cl02488
    Location:3993 → 4202
    SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
    cl25732
    Location:877 → 1711
    SMC_N; RecF/RecN/SMC N terminal domain

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018395074.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    188875..412698
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021473371.2 → XP_021329046.1  nesprin-1 isoform X3

    UniProtKB/TrEMBL
    A0A8M9Q2Z9
    Conserved Domains (5) summary
    COG5069
    Location:24 → 287
    SAC6; Ca2+-binding actin-bundling protein fimbrin/plastin (EF-Hand superfamily) [Cytoskeleton]
    cd00176
    Location:7696 → 7911
    SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
    pfam10541
    Location:8684 → 8718
    KASH; Nuclear envelope localization domain
    cl02488
    Location:6946 → 7155
    SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
    cl25732
    Location:2280 → 2965
    SMC_N; RecF/RecN/SMC N terminal domain

  2. XM_021473370.2 → XP_021329045.1  nesprin-1 isoform X1

    UniProtKB/TrEMBL
    A0A8M9Q747
    Conserved Domains (5) summary
    COG5069
    Location:37 → 300
    SAC6; Ca2+-binding actin-bundling protein fimbrin/plastin (EF-Hand superfamily) [Cytoskeleton]
    cd00176
    Location:7709 → 7924
    SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
    pfam10541
    Location:8697 → 8731
    KASH; Nuclear envelope localization domain
    cl02488
    Location:6959 → 7168
    SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
    cl25732
    Location:2293 → 2978
    SMC_N; RecF/RecN/SMC N terminal domain

  3. XM_021473373.2 → XP_021329048.1  nesprin-1 isoform X5

    UniProtKB/TrEMBL
    A0A8M9PPT9
    Conserved Domains (5) summary
    COG5069
    Location:37 → 300
    SAC6; Ca2+-binding actin-bundling protein fimbrin/plastin (EF-Hand superfamily) [Cytoskeleton]
    cd00176
    Location:7709 → 7924
    SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
    pfam10541
    Location:8674 → 8708
    KASH; Nuclear envelope localization domain
    cl02488
    Location:6959 → 7168
    SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
    cl25732
    Location:2293 → 2978
    SMC_N; RecF/RecN/SMC N terminal domain

  4. XM_021473372.2 → XP_021329047.1  nesprin-1 isoform X4

    UniProtKB/TrEMBL
    A0A8M9PD82
    Conserved Domains (5) summary
    COG5069
    Location:37 → 300
    SAC6; Ca2+-binding actin-bundling protein fimbrin/plastin (EF-Hand superfamily) [Cytoskeleton]
    cd00176
    Location:7696 → 7911
    SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
    pfam10541
    Location:8684 → 8718
    KASH; Nuclear envelope localization domain
    cl02488
    Location:6946 → 7155
    SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
    cl25732
    Location:2280 → 2965
    SMC_N; RecF/RecN/SMC N terminal domain

  5. XM_068218947.1 → XP_068075048.1  nesprin-1 isoform X2

Nucleotide Protein Strain
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