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    Cnot2 CCR4-NOT transcription complex, subunit 2 [ Mus musculus (house mouse) ]

    Gene ID: 72068, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Cnot2provided by MGI
    Official Full Name
    CCR4-NOT transcription complex, subunit 2provided by MGI
    Primary source
    MGI:MGI:1919318
    See related
    Ensembl:ENSMUSG00000020166 AllianceGenome:MGI:1919318
    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
    2600016M12Rik; 2810470K03Rik
    Summary
    Predicted to enable transcription corepressor binding activity. Predicted to contribute to poly(A)-specific ribonuclease activity. Involved in regulation of stem cell population maintenance and trophectodermal cell differentiation. Predicted to be located in cytosol; nucleoplasm; and plasma membrane. Predicted to be part of CCR4-NOT core complex. Predicted to be active in P-body. Is expressed in several structures, including 1st branchial arch; brain; genitourinary system; gut; and hemolymphoid system gland. Orthologous to human CNOT2 (CCR4-NOT transcription complex subunit 2). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in limb E14.5 (RPKM 10.3), CNS E11.5 (RPKM 10.3) and 27 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Cnot2 in Genome Data Viewer
    Location:
    10 D2; 10 64.76 cM
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (116321065..116418891, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (116485160..116581900, complement)

    Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene potassium large conductance calcium-activated channel, subfamily M, beta member 4 Neighboring gene predicted gene, 53634 Neighboring gene potassium large conductance calcium-activated channel, subfamily M, beta member 4, opposite strand 2 Neighboring gene STARR-positive B cell enhancer ABC_E2965 Neighboring gene STARR-positive B cell enhancer ABC_E5184 Neighboring gene STARR-seq mESC enhancer starr_27957 Neighboring gene predicted gene, 31593 Neighboring gene STARR-positive B cell enhancer ABC_E6924 Neighboring gene STARR-seq mESC enhancer starr_27959 Neighboring gene STARR-positive B cell enhancer mm9_chr10:116001983-116002283 Neighboring gene STARR-positive B cell enhancer ABC_E9805 Neighboring gene RIKEN cDNA 5330438D12 gene Neighboring gene STARR-positive B cell enhancer ABC_E6925 Neighboring gene STARR-seq mESC enhancer starr_27960 Neighboring gene STARR-seq mESC enhancer starr_27961 Neighboring gene predicted gene, 46203 Neighboring gene STARR-seq mESC enhancer starr_27962 Neighboring gene predicted gene, 26579

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data 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

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    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. These data have uncovered a novel role of core components of the Ccr4-Not complex as regulators of transition from partial to genuine induced pluripotent stem cells.
      Title: Identification of Ccr4-not complex components as regulators of transition from partial to genuine induced pluripotent stem cells.
    2. Cnot1, Cnot2, and Cnot3 represent a novel component of the core self-renewal and pluripotency circuitry conserved in mouse and human ESCs.
      Title: Cnot1, Cnot2, and Cnot3 maintain mouse and human ESC identity and inhibit extraembryonic differentiation.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC115808

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    contributes_to poly(A)-specific ribonuclease activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    contributes_to poly(A)-specific ribonuclease activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables transcription corepressor binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables transcription corepressor binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in negative regulation of intracellular estrogen receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of intracellular estrogen receptor signaling pathway ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of transcription by RNA polymerase II ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in nuclear-transcribed mRNA poly(A) tail shortening IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of cytoplasmic mRNA processing body assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of cytoplasmic mRNA processing body assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in regulation of stem cell population maintenance IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of stem cell population maintenance IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of stem cell population maintenance ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of translation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulatory ncRNA-mediated gene silencing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in trophectodermal cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of CCR4-NOT complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of CCR4-NOT complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    part_of CCR4-NOT core complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of CCR4-NOT core complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in P-body IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol TAS
    Traceable Author Statement
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    CCR4-NOT transcription complex subunit 2
    Names
    CCR4-associated factor 2

    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_001037846.3 → NP_001032935.2  CCR4-NOT transcription complex subunit 2 isoform a

      See identical proteins and their annotated locations for NP_001032935.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes isoform a.
      Source sequence(s)
      AK078121, BB353467, BC065171, BM245866
      Consensus CDS
      CCDS36064.1
      UniProtKB/Swiss-Prot
      Q3UE39, Q80YA5, Q8C5L3, Q9D0P1
      UniProtKB/TrEMBL
      Q3TIJ0
      Related
      ENSMUSP00000100902.2, ENSMUST00000105267.8
      Conserved Domains (1) summary
      pfam04153
      Location:396 → 519
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    2. NM_001037847.2 → NP_001032936.2  CCR4-NOT transcription complex subunit 2 isoform d

      See identical proteins and their annotated locations for NP_001032936.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site in its 5' coding region and uses an upstream translation start codon, compared to variant 1. The resulting isoform (d) is longer at the N-terminus, compared to isoform a.
      Source sequence(s)
      AK078121, BB353467, BC065171, BM245866
      UniProtKB/TrEMBL
      A0A1S6GWJ6, Q3TIJ0
      Conserved Domains (1) summary
      pfam04153
      Location:406 → 529
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    3. NM_001037848.3 → NP_001032937.1  CCR4-NOT transcription complex subunit 2 isoform c

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in the 3' UTR, lacks several exons in the 3' coding region, and includes an alternate terminal exon, compared to variant 1. The resulting isoform (c) has a distinct C-terminus and is shorter than isoform a.
      Source sequence(s)
      AC139376, AK078121, BC065171, BG067916
      Consensus CDS
      CCDS36065.1
      UniProtKB/TrEMBL
      H7BWX6
      Related
      ENSMUSP00000020374.6, ENSMUST00000020374.6

    4. NM_001359247.1 → NP_001346176.1  CCR4-NOT transcription complex subunit 2 isoform e

      Status: VALIDATED

      Source sequence(s)
      AC139376, AK078121, BB353467, BC043133, BC065171, CD578905
      UniProtKB/TrEMBL
      Q3TIJ0
      Conserved Domains (1) summary
      pfam04153
      Location:387 → 510
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    5. NM_001359248.1 → NP_001346177.1  CCR4-NOT transcription complex subunit 2 isoform e

      Status: VALIDATED

      Source sequence(s)
      AC139376, AK078121, BB353467, BC043133, BC065171, CX562783
      UniProtKB/TrEMBL
      Q3TIJ0
      Conserved Domains (1) summary
      pfam04153
      Location:387 → 510
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    6. NM_001359249.1 → NP_001346178.1  CCR4-NOT transcription complex subunit 2 isoform e

      Status: VALIDATED

      Source sequence(s)
      AC139376, AK011231, AK078121, BB353467, BC043133, BC065171, CD578905
      UniProtKB/TrEMBL
      Q3TIJ0
      Conserved Domains (1) summary
      pfam04153
      Location:387 → 510
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    7. NM_001359250.1 → NP_001346179.1  CCR4-NOT transcription complex subunit 2 isoform e

      Status: VALIDATED

      Source sequence(s)
      AC139376, AK078121, BB353467, BC043133, BC065171, CX562783
      UniProtKB/TrEMBL
      Q3TIJ0
      Conserved Domains (1) summary
      pfam04153
      Location:387 → 510
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    8. NM_001359251.1 → NP_001346180.1  CCR4-NOT transcription complex subunit 2 isoform e

      Status: VALIDATED

      Source sequence(s)
      AC139376, AK011231, AK078121, BB353467, BC043133, BC065171, CD578905
      UniProtKB/TrEMBL
      Q3TIJ0
      Conserved Domains (1) summary
      pfam04153
      Location:387 → 510
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    9. NM_001359252.1 → NP_001346181.1  CCR4-NOT transcription complex subunit 2 isoform e

      Status: VALIDATED

      Source sequence(s)
      AC139376, AK078121, BB353467, BC043133, BC065171, CD578905, CX562783
      UniProtKB/TrEMBL
      Q3TIJ0
      Conserved Domains (1) summary
      pfam04153
      Location:387 → 510
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    10. NM_001359253.1 → NP_001346182.1  CCR4-NOT transcription complex subunit 2 isoform f

      Status: VALIDATED

      Source sequence(s)
      AC139376, AK078121, BB353467, BC043133, CX562783
      Conserved Domains (1) summary
      pfam04153
      Location:206 → 329
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    11. NM_001359563.1 → NP_001346492.1  CCR4-NOT transcription complex subunit 2 isoform g

      Status: VALIDATED

      Source sequence(s)
      AC139376, AI428917, AK011231, BC065171
      Consensus CDS
      CCDS88089.1
      UniProtKB/TrEMBL
      Q5CZY5
      Related
      ENSMUSP00000100900.2, ENSMUST00000105265.8
      Conserved Domains (1) summary
      pfam04153
      Location:311 → 434
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    12. NM_028082.2 → NP_082358.2  CCR4-NOT transcription complex subunit 2 isoform b

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an alternate in-frame exon in the 5' coding region, compared to variant 1, resulting in an isoform (b) that is shorter than isoform 1.
      Source sequence(s)
      AK078121, BB345568, BC065171, BC090624
      Consensus CDS
      CCDS24185.2
      UniProtKB/TrEMBL
      E9Q027, Q5CZY5
      Related
      ENSMUSP00000132315.2, ENSMUST00000168036.8
      Conserved Domains (1) summary
      pfam04153
      Location:355 → 478
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    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_000076.7 Reference GRCm39 C57BL/6J

      Range
      116321065..116418891 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006514188.5 → XP_006514251.1  CCR4-NOT transcription complex subunit 2 isoform X8

      Conserved Domains (1) summary
      pfam04153
      Location:259 → 382
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    2. XM_006514186.4 → XP_006514249.1  CCR4-NOT transcription complex subunit 2 isoform X6

      Conserved Domains (1) summary
      pfam04153
      Location:269 → 392
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    3. XM_030245299.2 → XP_030101159.1  CCR4-NOT transcription complex subunit 2 isoform X5

      UniProtKB/TrEMBL
      Q5CZY5
      Conserved Domains (1) summary
      pfam04153
      Location:311 → 434
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    4. XM_006514189.3 → XP_006514252.1  CCR4-NOT transcription complex subunit 2 isoform X10

      Conserved Domains (1) summary
      pfam04153
      Location:218 → 341
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    5. XM_006514190.3 → XP_006514253.1  CCR4-NOT transcription complex subunit 2 isoform X11

      See identical proteins and their annotated locations for XP_006514253.1

      Conserved Domains (1) summary
      pfam04153
      Location:206 → 329
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    6. XM_006514183.3 → XP_006514246.1  CCR4-NOT transcription complex subunit 2 isoform X5

      See identical proteins and their annotated locations for XP_006514246.1

      UniProtKB/TrEMBL
      Q5CZY5
      Conserved Domains (1) summary
      pfam04153
      Location:311 → 434
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    7. XM_030245302.1 → XP_030101162.1  CCR4-NOT transcription complex subunit 2 isoform X11

      Conserved Domains (1) summary
      pfam04153
      Location:206 → 329
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    8. XM_036156035.1 → XP_036011928.1  CCR4-NOT transcription complex subunit 2 isoform X5

      UniProtKB/TrEMBL
      Q5CZY5
      Conserved Domains (1) summary
      pfam04153
      Location:311 → 434
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    9. XM_017314111.1 → XP_017169600.1  CCR4-NOT transcription complex subunit 2 isoform X9

      Conserved Domains (1) summary
      pfam04153
      Location:250 → 373
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    10. XM_036156036.1 → XP_036011929.1  CCR4-NOT transcription complex subunit 2 isoform X5

      UniProtKB/TrEMBL
      Q5CZY5
      Conserved Domains (1) summary
      pfam04153
      Location:311 → 434
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    11. XM_030245301.1 → XP_030101161.1  CCR4-NOT transcription complex subunit 2 isoform X9

      Conserved Domains (1) summary
      pfam04153
      Location:250 → 373
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    12. XM_030245300.1 → XP_030101160.1  CCR4-NOT transcription complex subunit 2 isoform X7

      Conserved Domains (1) summary
      pfam04153
      Location:228 → 351
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    13. XM_036156038.1 → XP_036011931.1  CCR4-NOT transcription complex subunit 2 isoform X9

      Conserved Domains (1) summary
      pfam04153
      Location:250 → 373
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    14. XM_036156039.1 → XP_036011932.1  CCR4-NOT transcription complex subunit 2 isoform X9

      Conserved Domains (1) summary
      pfam04153
      Location:250 → 373
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    15. XM_006514184.3 → XP_006514247.1  CCR4-NOT transcription complex subunit 2 isoform X5

      See identical proteins and their annotated locations for XP_006514247.1

      UniProtKB/TrEMBL
      Q5CZY5
      Conserved Domains (1) summary
      pfam04153
      Location:311 → 434
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    16. XM_036156040.1 → XP_036011933.1  CCR4-NOT transcription complex subunit 2 isoform X11

      Conserved Domains (1) summary
      pfam04153
      Location:206 → 329
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    17. XM_006514191.2 → XP_006514254.1  CCR4-NOT transcription complex subunit 2 isoform X11

      See identical proteins and their annotated locations for XP_006514254.1

      Conserved Domains (1) summary
      pfam04153
      Location:206 → 329
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    18. XM_036156037.1 → XP_036011930.1  CCR4-NOT transcription complex subunit 2 isoform X9

      Conserved Domains (1) summary
      pfam04153
      Location:250 → 373
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    19. XM_006514174.4 → XP_006514237.1  CCR4-NOT transcription complex subunit 2 isoform X1

      See identical proteins and their annotated locations for XP_006514237.1

      UniProtKB/TrEMBL
      Q5CZY5
      Conserved Domains (1) summary
      pfam04153
      Location:365 → 488
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    20. XM_030245297.2 → XP_030101157.1  CCR4-NOT transcription complex subunit 2 isoform X3

      UniProtKB/TrEMBL
      Q3TIJ0
      Conserved Domains (1) summary
      pfam04153
      Location:387 → 510
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    21. XM_006514181.3 → XP_006514244.1  CCR4-NOT transcription complex subunit 2 isoform X3

      See identical proteins and their annotated locations for XP_006514244.1

      UniProtKB/TrEMBL
      Q3TIJ0
      Conserved Domains (1) summary
      pfam04153
      Location:387 → 510
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    22. XM_017314107.2 → XP_017169596.1  CCR4-NOT transcription complex subunit 2 isoform X3

      UniProtKB/TrEMBL
      Q3TIJ0
      Conserved Domains (1) summary
      pfam04153
      Location:387 → 510
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    23. XM_006514182.4 → XP_006514245.1  CCR4-NOT transcription complex subunit 2 isoform X4

      UniProtKB/TrEMBL
      Q3TIJ0
      Conserved Domains (1) summary
      pfam04153
      Location:376 → 499
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    24. XM_036156034.1 → XP_036011927.1  CCR4-NOT transcription complex subunit 2 isoform X3

      UniProtKB/TrEMBL
      Q3TIJ0
      Conserved Domains (1) summary
      pfam04153
      Location:387 → 510
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    25. XM_036156033.1 → XP_036011926.1  CCR4-NOT transcription complex subunit 2 isoform X3

      UniProtKB/TrEMBL
      Q3TIJ0
      Conserved Domains (1) summary
      pfam04153
      Location:387 → 510
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    26. XM_030245296.2 → XP_030101156.1  CCR4-NOT transcription complex subunit 2 isoform X2

      UniProtKB/Swiss-Prot
      Q3UE39, Q80YA5, Q8C5L3, Q9D0P1
      UniProtKB/TrEMBL
      Q3TIJ0
      Conserved Domains (1) summary
      pfam04153
      Location:396 → 519
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    27. XM_006514175.5 → XP_006514238.1  CCR4-NOT transcription complex subunit 2 isoform X2

      See identical proteins and their annotated locations for XP_006514238.1

      UniProtKB/Swiss-Prot
      Q3UE39, Q80YA5, Q8C5L3, Q9D0P1
      UniProtKB/TrEMBL
      Q3TIJ0
      Conserved Domains (1) summary
      pfam04153
      Location:396 → 519
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    28. XM_036156041.1 → XP_036011934.1  CCR4-NOT transcription complex subunit 2 isoform X12

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8C5L3.2 GenPept UniProtKB/Swiss-Prot:Q8C5L3

    Gene LinkOut

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