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    Bcl11b B cell leukemia/lymphoma 11B [ Mus musculus (house mouse) ]

    Gene ID: 58208, updated on 9-Dec-2024

    Summary

    Official Symbol
    Bcl11bprovided by MGI
    Official Full Name
    B cell leukemia/lymphoma 11Bprovided by MGI
    Primary source
    MGI:MGI:1929913
    See related
    Ensembl:ENSMUSG00000048251 AllianceGenome:MGI:1929913
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Rit1; Ctip2; BCL-11B; 9130430L19Rik; B630002E05Rik
    Summary
    Enables DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within several processes, including T cell differentiation; epithelial cell development; and neuron differentiation. Located in neuron projection and nucleus. Part of SWI/SNF complex. Is expressed in several structures, including alimentary system; central nervous system; cranium; nose; and skin. Human ortholog(s) of this gene implicated in immunodeficiency 49. Orthologous to human BCL11B (BCL11 transcription factor B). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in thymus adult (RPKM 56.0), CNS E18 (RPKM 12.1) and 8 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Bcl11b in Genome Data Viewer
    Location:
    12 F1; 12 59.1 cM
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 12 NC_000078.7 (107876662..107970404, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 12 NC_000078.6 (107910403..108004145, complement)

    Chromosome 12 - NC_000078.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 4930465M20 gene Neighboring gene CapStarr-seq enhancer MGSCv37_chr12:108972876-108973059 Neighboring gene CapStarr-seq enhancer MGSCv37_chr12:109017655-109017838 Neighboring gene CapStarr-seq enhancer MGSCv37_chr12:109017971-109018080 Neighboring gene STARR-seq mESC enhancer starr_33225 Neighboring gene predicted gene, 33341 Neighboring gene STARR-seq mESC enhancer starr_33229 Neighboring gene CapStarr-seq enhancer MGSCv37_chr12:109157062-109157245 Neighboring gene CapStarr-seq enhancer MGSCv37_chr12:109164383-109164658 Neighboring gene CapStarr-seq enhancer MGSCv37_chr12:109166259-109166489 Neighboring gene STARR-seq mESC enhancer starr_33230 Neighboring gene CapStarr-seq enhancer MGSCv37_chr12:109202967-109203154 Neighboring gene CapStarr-seq enhancer MGSCv37_chr12:109231387-109231540 Neighboring gene STARR-seq mESC enhancer starr_33235 Neighboring gene SET domain containing 3 Neighboring gene STARR-positive B cell enhancer ABC_E743 Neighboring gene cyclin K Neighboring gene coiled-coil domain containing 85C Neighboring gene STARR-positive B cell enhancer mm9_chr12:109513689-109513989 Neighboring gene CapStarr-seq enhancer MGSCv37_chr12:109514813-109514922

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Process Evidence Code Pubs
    acts_upstream_of T cell apoptotic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within T cell differentiation in thymus IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within T cell receptor V(D)J recombination IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within alpha-beta T cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of apoptotic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within axonogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within central nervous system neuron differentiation IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within commitment of neuronal cell to specific neuron type in forebrain IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within epithelial cell morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in hematopoietic stem cell migration ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in hematopoietic stem cell migration ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    acts_upstream_of_or_within keratinocyte development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in lymphoid lineage cell migration into thymus ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in lymphoid lineage cell migration into thymus ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    acts_upstream_of_or_within negative regulation of T cell apoptotic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within negative regulation of cell population proliferation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within negative regulation of thymocyte apoptotic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within odontogenesis of dentin-containing tooth IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within olfactory bulb axon guidance IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within positive T cell selection IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within post-embryonic camera-type eye development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within post-embryonic development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within regulation of gene expression IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within regulation of keratinocyte proliferation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within regulation of lipid metabolic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within regulation of neuron differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within skin development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within striatal medium spiny neuron differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of thymocyte apoptotic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within thymus development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of transcription by RNA polymerase II IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    part_of SWI/SNF complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of SWI/SNF complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in intracellular anatomical structure IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in neuron projection IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    B-cell lymphoma/leukemia 11B
    Names
    B-cell CLL/lymphoma 11B
    B-cell lymphoma/leukaemia 11B
    COUP-TF-interacting protein 2
    mRit1
    radiation-induced tumor suppressor gene 1 protein

    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_001079883.1NP_001073352.1  B-cell lymphoma/leukemia 11B isoform a

      See identical proteins and their annotated locations for NP_001073352.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (a).
      Source sequence(s)
      AC119219, AC119921, BM950501, BQ442983, CV563304
      Consensus CDS
      CCDS36553.1
      UniProtKB/Swiss-Prot
      Q8C2I1, Q99PV6, Q99PV7, Q99PV8, Q9JLF8
      Related
      ENSMUSP00000068258.5, ENSMUST00000066060.11
      Conserved Domains (3) summary
      sd00017
      Location:788808
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:787808
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:800825
      zf-H2C2_2; Zinc-finger double domain
    2. NM_001286343.1NP_001273272.1  B-cell lymphoma/leukemia 11B isoform c

      See identical proteins and their annotated locations for NP_001273272.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks two internal coding exons but maintains the reading frame, compared to variant 1. The resulting isoform (c) lacks an internal segment, compared to isoform a.
      Source sequence(s)
      AC119219, AC119921
      Consensus CDS
      CCDS70419.1
      UniProtKB/TrEMBL
      A0A0R4J1E1
      Related
      ENSMUSP00000105513.2, ENSMUST00000109887.8
      Conserved Domains (3) summary
      sd00017
      Location:594614
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:593614
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:606631
      zf-H2C2_2; Zinc-finger double domain
    3. NM_021399.2NP_067374.2  B-cell lymphoma/leukemia 11B isoform b

      See identical proteins and their annotated locations for NP_067374.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an in-frame coding exon, compared to variant 1. The resulting isoform (b) lacks an internal segment, compared to isoform a.
      Source sequence(s)
      AC119219, AC119921, BQ745012, CV563304
      Consensus CDS
      CCDS36552.1
      UniProtKB/Swiss-Prot
      Q99PV8
      Related
      ENSMUSP00000105517.3, ENSMUST00000109891.3
      Conserved Domains (4) summary
      sd00017
      Location:716736
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:356376
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:715736
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:728753
      zf-H2C2_2; Zinc-finger double domain

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000078.7 Reference GRCm39 C57BL/6J

      Range
      107876662..107970404 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006516111.4XP_006516174.1  B-cell lymphoma/leukemia 11B isoform X4

      Conserved Domains (4) summary
      sd00017
      Location:784804
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:424444
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:783804
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:796821
      zf-H2C2_2; Zinc-finger double domain
    2. XM_036157546.1XP_036013439.1  B-cell lymphoma/leukemia 11B isoform X5

      Conserved Domains (4) summary
      sd00017
      Location:783803
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:423443
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:782803
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:795820
      zf-H2C2_2; Zinc-finger double domain
    3. XM_011244153.3XP_011242455.1  B-cell lymphoma/leukemia 11B isoform X3

      Conserved Domains (4) summary
      sd00017
      Location:787807
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:427447
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:786807
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:799824
      zf-H2C2_2; Zinc-finger double domain
    4. XM_006516114.4XP_006516177.1  B-cell lymphoma/leukemia 11B isoform X9

      Conserved Domains (4) summary
      sd00017
      Location:715735
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:355375
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:714735
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:727752
      zf-H2C2_2; Zinc-finger double domain
    5. XM_017315145.3XP_017170634.1  B-cell lymphoma/leukemia 11B isoform X10

      Conserved Domains (4) summary
      sd00017
      Location:670690
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:310330
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:669690
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:682707
      zf-H2C2_2; Zinc-finger double domain
    6. XM_017315144.3XP_017170633.1  B-cell lymphoma/leukemia 11B isoform X10

      Conserved Domains (4) summary
      sd00017
      Location:670690
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:310330
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:669690
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:682707
      zf-H2C2_2; Zinc-finger double domain
    7. XM_036157548.1XP_036013441.1  B-cell lymphoma/leukemia 11B isoform X8

      Conserved Domains (4) summary
      sd00017
      Location:738758
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:378398
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:737758
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:750775
      zf-H2C2_2; Zinc-finger double domain
    8. XM_017315143.3XP_017170632.1  B-cell lymphoma/leukemia 11B isoform X7

      Conserved Domains (4) summary
      sd00017
      Location:742762
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:382402
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:741762
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:754779
      zf-H2C2_2; Zinc-finger double domain
    9. XM_006516110.5XP_006516173.1  B-cell lymphoma/leukemia 11B isoform X2

      Conserved Domains (4) summary
      sd00017
      Location:828848
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:468488
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:827848
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:840865
      zf-H2C2_2; Zinc-finger double domain
    10. XM_011244152.4XP_011242454.1  B-cell lymphoma/leukemia 11B isoform X1

      Conserved Domains (4) summary
      sd00017
      Location:832852
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:472492
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:831852
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:844869
      zf-H2C2_2; Zinc-finger double domain
    11. XM_006516113.5XP_006516176.1  B-cell lymphoma/leukemia 11B isoform X6

      Conserved Domains (4) summary
      sd00017
      Location:760780
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:400420
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:759780
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:772797
      zf-H2C2_2; Zinc-finger double domain
    12. XM_036157549.1XP_036013442.1  B-cell lymphoma/leukemia 11B isoform X8

      Conserved Domains (4) summary
      sd00017
      Location:738758
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:378398
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:737758
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:750775
      zf-H2C2_2; Zinc-finger double domain
    13. XM_036157547.1XP_036013440.1  B-cell lymphoma/leukemia 11B isoform X7

      Conserved Domains (4) summary
      sd00017
      Location:742762
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:382402
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:741762
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:754779
      zf-H2C2_2; Zinc-finger double domain
    14. XM_006516116.4XP_006516179.1  B-cell lymphoma/leukemia 11B isoform X12

      Conserved Domains (4) summary
      sd00017
      Location:608628
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:248268
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:607628
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:620645
      zf-H2C2_2; Zinc-finger double domain
    15. XM_006516115.4XP_006516178.1  B-cell lymphoma/leukemia 11B isoform X11

      Conserved Domains (4) summary
      sd00017
      Location:657677
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:297317
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:656677
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:669694
      zf-H2C2_2; Zinc-finger double domain