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    Bcl11a BCL11 transcription factor A [ Rattus norvegicus (Norway rat) ]

    Gene ID: 305589, updated on 27-Nov-2024

    Summary

    Official Symbol
    Bcl11aprovided by RGD
    Official Full Name
    BCL11 transcription factor Aprovided by RGD
    Primary source
    RGD:1309923
    See related
    EnsemblRapid:ENSRNOG00000007049 AllianceGenome:RGD:1309923
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Enables protein kinase binding activity. Involved in several processes, including cellular response to L-glutamate; negative regulation of branching morphogenesis of a nerve; and negative regulation of dendrite development. Is active in postsynapse. Human ortholog(s) of this gene implicated in autism spectrum disorder; beta thalassemia; schizophrenia; and sickle cell anemia. Orthologous to human BCL11A (BCL11 transcription factor A). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Spleen (RPKM 70.7), Brain (RPKM 24.9) and 5 other tissues See more
    Orthologs
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    Genomic context

    See Bcl11a in Genome Data Viewer
    Location:
    14q22
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 14 NC_086032.1 (102230147..102325289)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 14 NC_051349.1 (98029018..98124181)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 14 NC_005113.4 (108826717..108921197)

    Chromosome 14 - NC_086032.1Genomic Context describing neighboring genes Neighboring gene 60S ribosomal protein L17 pseudogene Neighboring gene poly(A) polymerase gamma Neighboring gene uncharacterized LOC134481803 Neighboring gene uncharacterized LOC102557119 Neighboring gene uncharacterized LOC134481804

    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

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    acts_upstream_of_or_within B cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within T cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to L-glutamate IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    acts_upstream_of gene expression ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of branching morphogenesis of a nerve IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of collateral sprouting ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of dendrite development IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in negative regulation of dendrite development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of dendrite development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of dendrite extension IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within negative regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of neuron projection development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of neuron remodeling IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of collateral sprouting ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of gene expression IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of neuron projection development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein sumoylation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of dendrite development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    Component Evidence Code Pubs
    part_of SWI/SNF complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nuclear body ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in paraspeckles ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in postsynapse IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    B-cell lymphoma/leukemia 11A
    Names
    B-cell CLL/lymphoma 11A (zinc finger protein)
    BAF chromatin remodeling complex subunit BCL11A
    BCL11A, BAF complex component

    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_001191683.1NP_001178612.1  B-cell lymphoma/leukemia 11A

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000014
      UniProtKB/TrEMBL
      A0A8I6ATN1, A0A8I6AXE0
      Related
      ENSRNOP00000091732.2, ENSRNOT00000102043.2
      Conserved Domains (3) summary
      sd00017
      Location:744764
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:743764
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:391416
      zf-H2C2_2; Zinc-finger double domain

    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_086032.1 Reference GRCr8

      Range
      102230147..102325289
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039092105.2XP_038948033.1  B-cell lymphoma/leukemia 11A isoform X8

      UniProtKB/TrEMBL
      A0A8I6ATN1
      Related
      ENSRNOP00000093688.2, ENSRNOT00000106316.2
      Conserved Domains (3) summary
      sd00017
      Location:710730
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:709730
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:357382
      zf-H2C2_2; Zinc-finger double domain
    2. XM_039092106.2XP_038948034.1  B-cell lymphoma/leukemia 11A isoform X10

      UniProtKB/TrEMBL
      A0A8I6ATN1
      Conserved Domains (4) summary
      sd00017
      Location:345365
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:710730
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:709730
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:357382
      zf-H2C2_2; Zinc-finger double domain
    3. XM_063273278.1XP_063129348.1  B-cell lymphoma/leukemia 11A isoform X13

    4. XM_063273276.1XP_063129346.1  B-cell lymphoma/leukemia 11A isoform X7

      Related
      ENSRNOP00000073102.3, ENSRNOT00000083146.3
    5. XM_006251588.5XP_006251650.2  B-cell lymphoma/leukemia 11A isoform X11

      UniProtKB/TrEMBL
      A0A8I6ATN1, A6JQ83, D3ZSY3
      Conserved Domains (3) summary
      sd00019
      Location:379399
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:378399
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:391416
      zf-H2C2_2; Zinc-finger double domain
    6. XM_063273280.1XP_063129350.1  B-cell lymphoma/leukemia 11A isoform X17

      UniProtKB/TrEMBL
      A0A0G2K4M7
    7. XM_006251594.5XP_006251656.2  B-cell lymphoma/leukemia 11A isoform X16

      UniProtKB/TrEMBL
      B0BN54, Q5RJJ9
    8. XM_063273277.1XP_063129347.1  B-cell lymphoma/leukemia 11A isoform X9

    9. XM_063273275.1XP_063129345.1  B-cell lymphoma/leukemia 11A isoform X3

    10. XM_039092107.2XP_038948035.2  B-cell lymphoma/leukemia 11A isoform X4

    11. XM_063273274.1XP_063129344.1  B-cell lymphoma/leukemia 11A isoform X2

    12. XM_017599256.2XP_017454745.2  B-cell lymphoma/leukemia 11A isoform X5

      UniProtKB/TrEMBL
      A0A8I6ATN1
      Related
      ENSRNOP00000009421.6, ENSRNOT00000009421.8
      Conserved Domains (3) summary
      sd00019
      Location:327347
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:326347
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:339364
      zf-H2C2_2; Zinc-finger double domain
    13. XM_063273273.1XP_063129343.1  B-cell lymphoma/leukemia 11A isoform X1

    14. XM_063273272.1XP_063129342.1  B-cell lymphoma/leukemia 11A isoform X1

    15. XM_063273279.1XP_063129349.1  B-cell lymphoma/leukemia 11A isoform X15

    16. XM_017599258.2XP_017454747.2  B-cell lymphoma/leukemia 11A isoform X14

      UniProtKB/TrEMBL
      A6JQ84
    17. XM_039092109.2XP_038948037.2  B-cell lymphoma/leukemia 11A isoform X1

    18. XM_039092108.2XP_038948036.2  B-cell lymphoma/leukemia 11A isoform X6

    19. XM_039092110.2XP_038948038.2  B-cell lymphoma/leukemia 11A isoform X12

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001013129.1: Suppressed sequence

      Description
      NM_001013129.1: This RefSeq was suppressed temporarily based on the calculation that the annotated protein was shorter than a protein or proteins from a putative ortholog.