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

    Gene ID: 314251, updated on 2-Nov-2024

    Summary

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    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
    human mouse all
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    Genomic context

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    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

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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. Novel beta-spectrin mutations in hereditary spherocytosis associated with decreased levels of mRNA. Maciag M, et al. Br J Haematol, 2009 Aug. PMID 19538529
    2. Spectrins in developing rat hippocampal cells. Ursitti JA, et al. Brain Res Dev Brain Res, 2001 Jul 23. PMID 11454415
    3. Spectrin Rouen (beta 220-218), a novel shortened beta-chain variant in a kindred with hereditary elliptocytosis. Characterization of the molecular defect as exon skipping due to a splice site mutation. Garbarz M, et al. J Clin Invest, 1991 Jul. PMID 2056132, Free PMC Article
    4. The actin binding domain of βI-spectrin regulates the morphological and functional dynamics of dendritic spines. Nestor MW, et al. PLoS One, 2011 Jan 31. PMID 21297961, Free PMC Article
    5. Growth and dissemination of Lewis lung carcinoma in plasminogen-deficient mice. Bugge TH, et al. Blood, 1997 Dec 1. PMID 9373263

    See all (18) 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 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

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

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

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000006

    2. NM_212522.1 → NP_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:2013 → 2086
      SPEC; Spectrin repeats
      smart00033
      Location:177 → 273
      CH; Calponin homology domain
      cd00014
      Location:55 → 158
      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:530 → 742
      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:422 → 526
      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_006240244.5 → XP_006240306.1  spectrin beta chain, erythrocytic isoform X1

      UniProtKB/TrEMBL
      A0A8I6AWM3, A0A8I6G9M6
      Related
      ENSRNOP00000097655.1, ENSRNOT00000094264.2
      Conserved Domains (6) summary
      smart00150
      Location:2013 → 2086
      SPEC; Spectrin repeats
      cd00176
      Location:530 → 742
      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:2182 → 2287
      PH_beta_spectrin; Beta-spectrin pleckstrin homology (PH) domain
      pfam00435
      Location:422 → 526
      Spectrin; Spectrin repeat
      cd21246
      Location:40 → 156
      CH_SPTB-like_rpt1; first calponin homology (CH) domain found in the beta-I spectrin-like subfamily
      cd21319
      Location:170 → 281
      CH_SPTB_rpt2; second calponin homology (CH) domain found in spectrin beta chain, erythrocytic (SPTB) and similar proteins

    2. XM_017594143.3 → XP_017449632.1  spectrin beta chain, erythrocytic isoform X1

      UniProtKB/TrEMBL
      A0A8I6AWM3, A0A8I6G9M6
      Conserved Domains (6) summary
      smart00150
      Location:2013 → 2086
      SPEC; Spectrin repeats
      cd00176
      Location:530 → 742
      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:2182 → 2287
      PH_beta_spectrin; Beta-spectrin pleckstrin homology (PH) domain
      pfam00435
      Location:422 → 526
      Spectrin; Spectrin repeat
      cd21246
      Location:40 → 156
      CH_SPTB-like_rpt1; first calponin homology (CH) domain found in the beta-I spectrin-like subfamily
      cd21319
      Location:170 → 281
      CH_SPTB_rpt2; second calponin homology (CH) domain found in spectrin beta chain, erythrocytic (SPTB) and similar proteins

    3. XM_017594142.3 → XP_017449631.1  spectrin beta chain, erythrocytic isoform X1

      UniProtKB/TrEMBL
      A0A8I6AWM3, A0A8I6G9M6
      Conserved Domains (6) summary
      smart00150
      Location:2013 → 2086
      SPEC; Spectrin repeats
      cd00176
      Location:530 → 742
      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:2182 → 2287
      PH_beta_spectrin; Beta-spectrin pleckstrin homology (PH) domain
      pfam00435
      Location:422 → 526
      Spectrin; Spectrin repeat
      cd21246
      Location:40 → 156
      CH_SPTB-like_rpt1; first calponin homology (CH) domain found in the beta-I spectrin-like subfamily
      cd21319
      Location:170 → 281
      CH_SPTB_rpt2; second calponin homology (CH) domain found in spectrin beta chain, erythrocytic (SPTB) and similar proteins
    Nucleotide Protein Strain
    Heading Accession and Version

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