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    Trerf1 transcriptional regulating factor 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 316219, updated on 28-Oct-2024

    Summary

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    Official Symbol
    Trerf1provided by RGD
    Official Full Name
    transcriptional regulating factor 1provided by RGD
    Primary source
    RGD:1307167
    See related
    EnsemblRapid:ENSRNOG00000022598 AllianceGenome:RGD:1307167
    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
    Summary
    Predicted to enable nuclear progesterone receptor binding activity; transcription coactivator binding activity; and transcription coregulator activity. Predicted to be involved in cellular response to steroid hormone stimulus and regulation of DNA-templated transcription. Predicted to be located in cytosol; fibrillar center; and nucleoplasm. Predicted to be part of histone deacetylase complex and transcription regulator complex. Predicted to be active in nucleus. Orthologous to human TRERF1 (transcriptional regulating factor 1). [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Biased expression in Adrenal (RPKM 27.0), Testes (RPKM 25.5) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Trerf1 in Genome Data Viewer
    Location:
    9q12
    Exon count:
    25
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (21131772..21355830, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (13631619..13858326, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (15653230..15881695, complement)

    Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene guanylate cyclase activator 1B Neighboring gene mitochondrial ribosomal protein S10 Neighboring gene U6 spliceosomal RNA Neighboring gene U6 spliceosomal RNA Neighboring gene ubiquitin protein ligase E3 component n-recognin 2 Neighboring gene U6 spliceosomal RNA

    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. Direct binding of TReP-132 with TdT results in reduction of TdT activity. Fujisaki S, et al. Genes Cells, 2006 Jan. PMID 16371131
    2. A novel zinc finger protein TReP-132 interacts with CBP/p300 to regulate human CYP11A1 gene expression. Gizard F, et al. J Biol Chem, 2001 Sep 7. PMID 11349124
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables nuclear progesterone receptor binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables nuclear receptor coactivator activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables transcription coactivator activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables transcription coactivator binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables transcription corepressor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in cellular response to progesterone stimulus ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in progesterone receptor signaling pathway 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
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in fibrillar center ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of histone deacetylase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of transcription regulator complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    transcriptional-regulating factor 1

    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_001108199.2 → NP_001101669.1  transcriptional-regulating factor 1 isoform 5

      See identical proteins and their annotated locations for NP_001101669.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000009
      UniProtKB/TrEMBL
      A0A8I6AN45, A6JIL1
      Conserved Domains (5) summary
      smart00717
      Location:811 → 856
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
      sd00017
      Location:937 → 959
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01448
      Location:704 → 758
      ELM2; ELM2 domain
      pfam13912
      Location:520 → 540
      zf-C2H2_6; C2H2-type zinc finger
      cl21498
      Location:812 → 856
      SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

    2. NM_001432828.1 → NP_001419757.1  transcriptional-regulating factor 1 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000009
      UniProtKB/TrEMBL
      A0A0G2K2H9

    3. NM_001432829.1 → NP_001419758.1  transcriptional-regulating factor 1 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000009

    4. NM_001432830.1 → NP_001419759.1  transcriptional-regulating factor 1 isoform 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000009

    5. NM_001432831.1 → NP_001419760.1  transcriptional-regulating factor 1 isoform 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000009

    6. NM_001432832.1 → NP_001419761.1  transcriptional-regulating factor 1 isoform 4

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000009

    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_086027.1 Reference GRCr8

      Range
      21131772..21355830 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039083499.2 → XP_038939427.1  transcriptional-regulating factor 1 isoform X1

      UniProtKB/TrEMBL
      A0A0G2K2H9, A0A8I6AN45
      Conserved Domains (5) summary
      PRK10263
      Location:219 → 390
      PRK10263; DNA translocase FtsK; Provisional
      sd00018
      Location:1129 → 1151
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01448
      Location:813 → 867
      ELM2; ELM2 domain
      pfam13912
      Location:520 → 540
      zf-C2H2_6; C2H2-type zinc finger
      cl21498
      Location:921 → 965
      SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

    2. XM_063267092.1 → XP_063123162.1  transcriptional-regulating factor 1 isoform X2

    3. XM_063267090.1 → XP_063123160.1  transcriptional-regulating factor 1 isoform X2

    4. XM_039083492.2 → XP_038939420.1  transcriptional-regulating factor 1 isoform X1

      UniProtKB/TrEMBL
      A0A0G2K2H9, A0A8I6AN45
      Conserved Domains (5) summary
      PRK10263
      Location:219 → 390
      PRK10263; DNA translocase FtsK; Provisional
      sd00018
      Location:1129 → 1151
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01448
      Location:813 → 867
      ELM2; ELM2 domain
      pfam13912
      Location:520 → 540
      zf-C2H2_6; C2H2-type zinc finger
      cl21498
      Location:921 → 965
      SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

    5. XM_063267088.1 → XP_063123158.1  transcriptional-regulating factor 1 isoform X1

      UniProtKB/TrEMBL
      A0A0G2K2H9

    6. XM_039083501.2 → XP_038939429.1  transcriptional-regulating factor 1 isoform X1

      UniProtKB/TrEMBL
      A0A0G2K2H9, A0A8I6AN45
      Related
      ENSRNOP00000072249.2, ENSRNOT00000088713.3
      Conserved Domains (5) summary
      PRK10263
      Location:219 → 390
      PRK10263; DNA translocase FtsK; Provisional
      sd00018
      Location:1129 → 1151
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01448
      Location:813 → 867
      ELM2; ELM2 domain
      pfam13912
      Location:520 → 540
      zf-C2H2_6; C2H2-type zinc finger
      cl21498
      Location:921 → 965
      SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

    7. XM_039083494.2 → XP_038939422.1  transcriptional-regulating factor 1 isoform X1

      UniProtKB/TrEMBL
      A0A0G2K2H9, A0A8I6AN45
      Conserved Domains (5) summary
      PRK10263
      Location:219 → 390
      PRK10263; DNA translocase FtsK; Provisional
      sd00018
      Location:1129 → 1151
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01448
      Location:813 → 867
      ELM2; ELM2 domain
      pfam13912
      Location:520 → 540
      zf-C2H2_6; C2H2-type zinc finger
      cl21498
      Location:921 → 965
      SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

    8. XM_039083500.2 → XP_038939428.1  transcriptional-regulating factor 1 isoform X1

      UniProtKB/TrEMBL
      A0A0G2K2H9, A0A8I6AN45
      Conserved Domains (5) summary
      PRK10263
      Location:219 → 390
      PRK10263; DNA translocase FtsK; Provisional
      sd00018
      Location:1129 → 1151
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01448
      Location:813 → 867
      ELM2; ELM2 domain
      pfam13912
      Location:520 → 540
      zf-C2H2_6; C2H2-type zinc finger
      cl21498
      Location:921 → 965
      SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

    9. XM_039083493.2 → XP_038939421.1  transcriptional-regulating factor 1 isoform X1

      UniProtKB/TrEMBL
      A0A0G2K2H9, A0A8I6AN45
      Conserved Domains (5) summary
      PRK10263
      Location:219 → 390
      PRK10263; DNA translocase FtsK; Provisional
      sd00018
      Location:1129 → 1151
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01448
      Location:813 → 867
      ELM2; ELM2 domain
      pfam13912
      Location:520 → 540
      zf-C2H2_6; C2H2-type zinc finger
      cl21498
      Location:921 → 965
      SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

    10. XM_039083491.2 → XP_038939419.1  transcriptional-regulating factor 1 isoform X1

      Conserved Domains (5) summary
      PRK10263
      Location:219 → 390
      PRK10263; DNA translocase FtsK; Provisional
      sd00018
      Location:1129 → 1151
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01448
      Location:813 → 867
      ELM2; ELM2 domain
      pfam13912
      Location:520 → 540
      zf-C2H2_6; C2H2-type zinc finger
      cl21498
      Location:921 → 965
      SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

    11. XM_017596416.3 → XP_017451905.1  transcriptional-regulating factor 1 isoform X6

      Conserved Domains (5) summary
      smart00717
      Location:811 → 856
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
      sd00017
      Location:937 → 959
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01448
      Location:704 → 758
      ELM2; ELM2 domain
      pfam13912
      Location:520 → 540
      zf-C2H2_6; C2H2-type zinc finger
      cl21498
      Location:812 → 856
      SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

    12. XM_017596415.3 → XP_017451904.1  transcriptional-regulating factor 1 isoform X5

      UniProtKB/TrEMBL
      A0A8I6AN45, D3ZYN9
      Related
      ENSRNOP00000032697.4, ENSRNOT00000035907.5

    13. XM_006244453.5 → XP_006244515.1  transcriptional-regulating factor 1 isoform X4

      UniProtKB/TrEMBL
      A0A8I6AN45
      Conserved Domains (5) summary
      smart00717
      Location:900 → 945
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
      sd00017
      Location:1026 → 1048
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01448
      Location:793 → 847
      ELM2; ELM2 domain
      pfam13912
      Location:520 → 540
      zf-C2H2_6; C2H2-type zinc finger
      cl21498
      Location:901 → 945
      SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

    14. XM_039083503.2 → XP_038939431.1  transcriptional-regulating factor 1 isoform X3

      Conserved Domains (4) summary
      PRK10263
      Location:219 → 390
      PRK10263; DNA translocase FtsK; Provisional
      pfam01448
      Location:793 → 847
      ELM2; ELM2 domain
      pfam13912
      Location:520 → 540
      zf-C2H2_6; C2H2-type zinc finger
      cl21498
      Location:901 → 945
      SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

    15. XM_006244452.5 → XP_006244514.1  transcriptional-regulating factor 1 isoform X2

      See identical proteins and their annotated locations for XP_006244514.1

      UniProtKB/TrEMBL
      A0A8I6AN45
      Conserved Domains (5) summary
      smart00717
      Location:920 → 965
      SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
      sd00017
      Location:1046 → 1068
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01448
      Location:813 → 867
      ELM2; ELM2 domain
      pfam13912
      Location:520 → 540
      zf-C2H2_6; C2H2-type zinc finger
      cl21498
      Location:921 → 965
      SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

    16. XM_039083498.2 → XP_038939426.1  transcriptional-regulating factor 1 isoform X1

      UniProtKB/TrEMBL
      A0A0G2K2H9, A0A8I6AN45
      Conserved Domains (5) summary
      PRK10263
      Location:219 → 390
      PRK10263; DNA translocase FtsK; Provisional
      sd00018
      Location:1129 → 1151
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01448
      Location:813 → 867
      ELM2; ELM2 domain
      pfam13912
      Location:520 → 540
      zf-C2H2_6; C2H2-type zinc finger
      cl21498
      Location:921 → 965
      SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

    17. XM_039083496.2 → XP_038939424.1  transcriptional-regulating factor 1 isoform X1

      UniProtKB/TrEMBL
      A0A0G2K2H9, A0A8I6AN45
      Conserved Domains (5) summary
      PRK10263
      Location:219 → 390
      PRK10263; DNA translocase FtsK; Provisional
      sd00018
      Location:1129 → 1151
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01448
      Location:813 → 867
      ELM2; ELM2 domain
      pfam13912
      Location:520 → 540
      zf-C2H2_6; C2H2-type zinc finger
      cl21498
      Location:921 → 965
      SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

    18. XM_063267089.1 → XP_063123159.1  transcriptional-regulating factor 1 isoform X1

      UniProtKB/TrEMBL
      A0A0G2K2H9

    19. XM_039083495.2 → XP_038939423.1  transcriptional-regulating factor 1 isoform X1

      UniProtKB/TrEMBL
      A0A0G2K2H9, A0A8I6AN45
      Conserved Domains (5) summary
      PRK10263
      Location:219 → 390
      PRK10263; DNA translocase FtsK; Provisional
      sd00018
      Location:1129 → 1151
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01448
      Location:813 → 867
      ELM2; ELM2 domain
      pfam13912
      Location:520 → 540
      zf-C2H2_6; C2H2-type zinc finger
      cl21498
      Location:921 → 965
      SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

    20. XM_063267091.1 → XP_063123161.1  transcriptional-regulating factor 1 isoform X2

    21. XM_039083497.2 → XP_038939425.1  transcriptional-regulating factor 1 isoform X1

      UniProtKB/TrEMBL
      A0A0G2K2H9, A0A8I6AN45
      Conserved Domains (5) summary
      PRK10263
      Location:219 → 390
      PRK10263; DNA translocase FtsK; Provisional
      sd00018
      Location:1129 → 1151
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01448
      Location:813 → 867
      ELM2; ELM2 domain
      pfam13912
      Location:520 → 540
      zf-C2H2_6; C2H2-type zinc finger
      cl21498
      Location:921 → 965
      SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

    22. XM_039083505.2 → XP_038939433.1  transcriptional-regulating factor 1 isoform X7

      Conserved Domains (4) summary
      sd00018
      Location:666 → 688
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01448
      Location:350 → 404
      ELM2; ELM2 domain
      pfam13912
      Location:57 → 77
      zf-C2H2_6; C2H2-type zinc finger
      cl21498
      Location:458 → 502
      SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...
    Nucleotide Protein Strain
    Heading Accession and Version

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