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    Sptb spectrin, beta, erythrocytic [ Rattus norvegicus (Norway rat) ]

    Gene ID: 314251, updated on 3-Dec-2024

    Summary

    Symbol
    Sptbprovided by RGD
    Full Name
    spectrin, beta, erythrocyticprovided by RGD
    Primary source
    RGD:1303243
    See related
    EnsemblRapid:ENSRNOG00000006911 AllianceGenome:RGD:1303243
    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
    Spnb1
    Summary
    Predicted to enable actin filament binding activity and ankyrin binding activity. Predicted to be involved in actin cytoskeleton organization and modification of postsynaptic actin cytoskeleton. Predicted to act upstream of or within hemopoiesis; plasma membrane organization; and porphyrin-containing compound biosynthetic process. Is active in glutamatergic synapse and postsynapse. Human ortholog(s) of this gene implicated in hereditary spherocytosis and hereditary spherocytosis type 2. Orthologous to human SPTB (spectrin beta, erythrocytic). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Muscle (RPKM 463.4), Spleen (RPKM 391.7) and 5 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Sptb in Genome Data Viewer
    Location:
    6q24
    Exon count:
    37
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (101043512..101170389, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (95310342..95437221, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (99657144..99783189, complement)

    Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene ribosomal protein S17 like 1 Neighboring gene pleckstrin homology and RhoGEF domain containing G3 Neighboring gene uncharacterized LOC134479402 Neighboring gene U6 spliceosomal RNA Neighboring gene churchill domain containing 1

    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

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables actin binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables actin filament binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables actin filament binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables ankyrin binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables phospholipid binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables structural constituent of cytoskeleton IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    involved_in actin cytoskeleton organization IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in actin filament capping IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in biological_process ND
    No biological Data available
    more info
     
    acts_upstream_of_or_within hemopoiesis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in modification of postsynaptic actin cytoskeleton ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within plasma membrane organization ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within porphyrin-containing compound biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    is_active_in cell junction IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    is_active_in cell projection IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cell surface ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in cortical actin cytoskeleton IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cortical cytoskeleton ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in glutamatergic synapse IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in glutamatergic synapse ISO
    Inferred from Sequence Orthology
    more info
     
    located_in membrane 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
     
    is_active_in postsynapse IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of protein-containing complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of spectrin IEA
    Inferred from Electronic Annotation
    more info
     
    located_in spectrin-associated cytoskeleton ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    spectrin beta chain, erythrocytic
    Names
    erythroid spectrin beta
    spectrin beta 1
    spectrin beta chain, erythrocyte

    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_001433972.1NP_001420901.1  spectrin beta chain, erythrocytic isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000006
      UniProtKB/TrEMBL
      A0A8I6AWM3, A0A8I6G9M6
    2. NM_212522.1NP_997687.1  spectrin beta chain, erythrocytic isoform 1

      See identical proteins and their annotated locations for NP_997687.1

      Status: VALIDATED

      Source sequence(s)
      AY238343
      UniProtKB/TrEMBL
      A0A140UHX6, F1MAL3, Q6XDA0
      Related
      ENSRNOP00000009028.9, ENSRNOT00000009028.9
      Conserved Domains (5) summary
      smart00150
      Location:20132086
      SPEC; Spectrin repeats
      smart00033
      Location:177273
      CH; Calponin homology domain
      cd00014
      Location:55158
      CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
      cd00176
      Location:530742
      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; ...
      pfam00435
      Location:422526
      Spectrin; Spectrin repeat

    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_086024.1 Reference GRCr8

      Range
      101043512..101170389 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006240244.5XP_006240306.1  spectrin beta chain, erythrocytic isoform X1

      Related
      ENSRNOP00000097655.1, ENSRNOT00000094264.2
      Conserved Domains (6) summary
      smart00150
      Location:20132086
      SPEC; Spectrin repeats
      cd00176
      Location:530742
      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; ...
      cd10571
      Location:21822287
      PH_beta_spectrin; Beta-spectrin pleckstrin homology (PH) domain
      pfam00435
      Location:422526
      Spectrin; Spectrin repeat
      cd21246
      Location:40156
      CH_SPTB-like_rpt1; first calponin homology (CH) domain found in the beta-I spectrin-like subfamily
      cd21319
      Location:170281
      CH_SPTB_rpt2; second calponin homology (CH) domain found in spectrin beta chain, erythrocytic (SPTB) and similar proteins
    2. XM_017594143.3XP_017449632.1  spectrin beta chain, erythrocytic isoform X1

      UniProtKB/TrEMBL
      A0A8I6AWM3, A0A8I6G9M6
      Conserved Domains (6) summary
      smart00150
      Location:20132086
      SPEC; Spectrin repeats
      cd00176
      Location:530742
      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; ...
      cd10571
      Location:21822287
      PH_beta_spectrin; Beta-spectrin pleckstrin homology (PH) domain
      pfam00435
      Location:422526
      Spectrin; Spectrin repeat
      cd21246
      Location:40156
      CH_SPTB-like_rpt1; first calponin homology (CH) domain found in the beta-I spectrin-like subfamily
      cd21319
      Location:170281
      CH_SPTB_rpt2; second calponin homology (CH) domain found in spectrin beta chain, erythrocytic (SPTB) and similar proteins
    3. XM_017594142.3XP_017449631.1  spectrin beta chain, erythrocytic isoform X1

      UniProtKB/TrEMBL
      A0A8I6AWM3, A0A8I6G9M6
      Conserved Domains (6) summary
      smart00150
      Location:20132086
      SPEC; Spectrin repeats
      cd00176
      Location:530742
      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; ...
      cd10571
      Location:21822287
      PH_beta_spectrin; Beta-spectrin pleckstrin homology (PH) domain
      pfam00435
      Location:422526
      Spectrin; Spectrin repeat
      cd21246
      Location:40156
      CH_SPTB-like_rpt1; first calponin homology (CH) domain found in the beta-I spectrin-like subfamily
      cd21319
      Location:170281
      CH_SPTB_rpt2; second calponin homology (CH) domain found in spectrin beta chain, erythrocytic (SPTB) and similar proteins