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    Pum1 pumilio RNA-binding family member 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 362609, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Pum1provided by RGD
    Official Full Name
    pumilio RNA-binding family member 1provided by RGD
    Primary source
    RGD:1307190
    See related
    EnsemblRapid:ENSRNOG00000011709 AllianceGenome:RGD:1307190
    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
    Predicted to enable mRNA 3'-UTR binding activity and miRNA binding activity. Predicted to be involved in several processes, including adult locomotory behavior; positive regulation of RIG-I signaling pathway; and regulation of gene expression. Predicted to act upstream of or within post-transcriptional regulation of gene expression. Located in axon. Human ortholog(s) of this gene implicated in cerebellar ataxia type 47. Orthologous to human PUM1 (pumilio RNA binding family member 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Thymus (RPKM 211.1), Spleen (RPKM 205.5) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Pum1 in Genome Data Viewer
    Location:
    5q36
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (148120712..148238468)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (142836933..142954331)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (148781239..148911776)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene ribosomal protein L10, pseudogene 6 Neighboring gene Sodium/potassium transporting ATPase interacting 1 Neighboring gene uncharacterized LOC134479033 Neighboring gene small nucleolar RNA SNORD103/SNORD85 Neighboring gene small nucleolar RNA SNORD103/SNORD85 Neighboring gene small nucleolar RNA SNORD103/SNORD85 Neighboring gene syndecan 3 Neighboring gene uncharacterized LOC108351040

    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. A universal code for RNA recognition by PUF proteins. Filipovska A, et al. Nat Chem Biol, 2011 May 15. PMID 21572425
    2. Pum2 Shapes the Transcriptome in Developing Axons through Retention of Target mRNAs in the Cell Body. Martínez JC, et al. Neuron, 2019 Dec 4. PMID 31606248, Free PMC Article
    3. Pumilio 1 suppresses multiple activators of p53 to safeguard spermatogenesis. Chen D, et al. Curr Biol, 2012 Mar 6. PMID 22342750, Free PMC Article
    4. Pumilio1 haploinsufficiency leads to SCA1-like neurodegeneration by increasing wild-type Ataxin1 levels. Gennarino VA, et al. Cell, 2015 Mar 12. PMID 25768905, Free PMC Article
    5. Genetic exploration of the exit from self-renewal using haploid embryonic stem cells. Leeb M, et al. Cell Stem Cell, 2014 Mar 6. PMID 24412312, Free PMC Article

    See all (16) 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 RNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables mRNA 3'-UTR binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables mRNA 3'-UTR binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables miRNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in adult locomotory behavior ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mRNA destabilization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in miRNA processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in miRNA processing ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of RIG-I signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of miRNA-mediated gene silencing ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in post-transcriptional gene silencing ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within post-transcriptional regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_positive_effect post-transcriptional regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of cell cycle ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of chromosome segregation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of mRNA stability IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of mRNA stability ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in spermatogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in stem cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in P-body ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in axon IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasmic stress granule ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    pumilio homolog 1
    Names
    pumilio 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_001108684.1 → NP_001102154.1  pumilio homolog 1

      See identical proteins and their annotated locations for NP_001102154.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473968
      UniProtKB/TrEMBL
      A6ISP6
      Conserved Domains (1) summary
      cd07920
      Location:844 → 1167
      Pumilio; Pumilio-family RNA binding 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_086023.1 Reference GRCr8

      Range
      148120712..148238468
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006239029.4 → XP_006239091.1  pumilio homolog 1 isoform X1

      See identical proteins and their annotated locations for XP_006239091.1

      Conserved Domains (1) summary
      cd07920
      Location:848 → 1171
      Pumilio; Pumilio-family RNA binding domain

    2. XM_039110364.2 → XP_038966292.1  pumilio homolog 1 isoform X1

      Conserved Domains (1) summary
      cd07920
      Location:848 → 1171
      Pumilio; Pumilio-family RNA binding domain

    3. XM_006239031.4 → XP_006239093.1  pumilio homolog 1 isoform X3

      UniProtKB/TrEMBL
      D3Z8L5
      Conserved Domains (1) summary
      cd07920
      Location:848 → 1169
      Pumilio; Pumilio-family RNA binding domain

    4. XM_006239035.4 → XP_006239097.1  pumilio homolog 1 isoform X11

      Conserved Domains (1) summary
      cd07920
      Location:769 → 1092
      Pumilio; Pumilio-family RNA binding domain

    5. XM_006239036.4 → XP_006239098.1  pumilio homolog 1 isoform X12

      Conserved Domains (1) summary
      cd07920
      Location:769 → 1090
      Pumilio; Pumilio-family RNA binding domain

    6. XM_063288030.1 → XP_063144100.1  pumilio homolog 1 isoform X6

    7. XM_063288036.1 → XP_063144106.1  pumilio homolog 1 isoform X13

      Related
      ENSRNOP00000094449.2, ENSRNOT00000115266.2

    8. XM_017593516.3 → XP_017449005.1  pumilio homolog 1 isoform X16

      Conserved Domains (1) summary
      cd07920
      Location:765 → 1086
      Pumilio; Pumilio-family RNA binding domain

    9. XM_006239032.4 → XP_006239094.1  pumilio homolog 1 isoform X4

      Related
      ENSRNOP00000015831.8, ENSRNOT00000015831.8
      Conserved Domains (1) summary
      cd07920
      Location:843 → 1166
      Pumilio; Pumilio-family RNA binding domain

    10. XM_006239033.4 → XP_006239095.1  pumilio homolog 1 isoform X8

      UniProtKB/TrEMBL
      D3Z8L5
      Conserved Domains (1) summary
      cd07920
      Location:843 → 1164
      Pumilio; Pumilio-family RNA binding domain

    11. XM_063288037.1 → XP_063144107.1  pumilio homolog 1 isoform X14

    12. XM_063288051.1 → XP_063144121.1  pumilio homolog 1 isoform X29

    13. XM_006239034.4 → XP_006239096.1  pumilio homolog 1 isoform X10

      Related
      ENSRNOP00000102483.1, ENSRNOT00000167373.1
      Conserved Domains (1) summary
      cd07920
      Location:809 → 1132
      Pumilio; Pumilio-family RNA binding domain

    14. XM_063288043.1 → XP_063144113.1  pumilio homolog 1 isoform X21

    15. XM_063288044.1 → XP_063144114.1  pumilio homolog 1 isoform X22

    16. XM_039110370.2 → XP_038966298.1  pumilio homolog 1 isoform X26

      Conserved Domains (1) summary
      cd07920
      Location:702 → 1025
      Pumilio; Pumilio-family RNA binding domain

    17. XM_039110371.2 → XP_038966299.1  pumilio homolog 1 isoform X27

      Conserved Domains (1) summary
      cd07920
      Location:698 → 1021
      Pumilio; Pumilio-family RNA binding domain

    18. XM_006239030.4 → XP_006239092.1  pumilio homolog 1 isoform X2

      Conserved Domains (1) summary
      cd07920
      Location:847 → 1170
      Pumilio; Pumilio-family RNA binding domain

    19. XM_063288029.1 → XP_063144099.1  pumilio homolog 1 isoform X5

    20. XM_063288038.1 → XP_063144108.1  pumilio homolog 1 isoform X15

    21. XM_063288032.1 → XP_063144102.1  pumilio homolog 1 isoform X7

    22. XM_063288034.1 → XP_063144104.1  pumilio homolog 1 isoform X9

    23. XM_063288039.1 → XP_063144109.1  pumilio homolog 1 isoform X17

    24. XM_063288049.1 → XP_063144119.1  pumilio homolog 1 isoform X28

    25. XM_006239037.4 → XP_006239099.1  pumilio homolog 1 isoform X18

      Conserved Domains (1) summary
      cd07920
      Location:752 → 1075
      Pumilio; Pumilio-family RNA binding domain

    26. XM_063288040.1 → XP_063144110.1  pumilio homolog 1 isoform X19

    27. XM_063288041.1 → XP_063144111.1  pumilio homolog 1 isoform X20

      Related
      ENSRNOP00000094824.2, ENSRNOT00000103603.2

    28. XM_039110375.2 → XP_038966303.1  pumilio homolog 1 isoform X36

      Conserved Domains (1) summary
      cd07920
      Location:606 → 929
      Pumilio; Pumilio-family RNA binding domain

    29. XM_039110376.2 → XP_038966304.1  pumilio homolog 1 isoform X37

      Conserved Domains (1) summary
      cd07920
      Location:602 → 925
      Pumilio; Pumilio-family RNA binding domain

    30. XM_063288057.1 → XP_063144127.1  pumilio homolog 1 isoform X38

    31. XM_006239041.4 → XP_006239103.1  pumilio homolog 1 isoform X39

      UniProtKB/TrEMBL
      A0A8I6ALN0
      Conserved Domains (1) summary
      cd07920
      Location:601 → 922
      Pumilio; Pumilio-family RNA binding domain

    32. XM_039110372.2 → XP_038966300.1  pumilio homolog 1 isoform X35

      Related
      ENSRNOP00000105503.1, ENSRNOT00000127358.1
      Conserved Domains (1) summary
      cd07920
      Location:697 → 1020
      Pumilio; Pumilio-family RNA binding domain

    33. XM_006239038.4 → XP_006239100.1  pumilio homolog 1 isoform X30

      UniProtKB/TrEMBL
      A0A8I6ALJ5
      Conserved Domains (1) summary
      cd07920
      Location:747 → 1070
      Pumilio; Pumilio-family RNA binding domain

    34. XM_039110368.2 → XP_038966296.1  pumilio homolog 1 isoform X32

      Conserved Domains (1) summary
      cd07920
      Location:747 → 1068
      Pumilio; Pumilio-family RNA binding domain

    35. XM_039110377.2 → XP_038966305.1  pumilio homolog 1 isoform X41

      Related
      ENSRNOP00000107308.1, ENSRNOT00000171136.1
      Conserved Domains (1) summary
      cd07920
      Location:601 → 924
      Pumilio; Pumilio-family RNA binding domain

    36. XM_063288058.1 → XP_063144128.1  pumilio homolog 1 isoform X40

    37. XM_063288052.1 → XP_063144122.1  pumilio homolog 1 isoform X31

    38. XM_063288048.1 → XP_063144118.1  pumilio homolog 1 isoform X25

    39. XM_039110369.2 → XP_038966297.1  pumilio homolog 1 isoform X22

      Conserved Domains (1) summary
      cd07920
      Location:728 → 1051
      Pumilio; Pumilio-family RNA binding domain

    40. XM_063288046.1 → XP_063144116.1  pumilio homolog 1 isoform X23

    41. XM_039110366.2 → XP_038966294.1  pumilio homolog 1 isoform X1

      Conserved Domains (1) summary
      cd07920
      Location:848 → 1171
      Pumilio; Pumilio-family RNA binding domain

    42. XM_063288033.1 → XP_063144103.1  pumilio homolog 1 isoform X8

    43. XM_063288028.1 → XP_063144098.1  pumilio homolog 1 isoform X4

    44. XM_063288031.1 → XP_063144101.1  pumilio homolog 1 isoform X6

    45. XM_063288045.1 → XP_063144115.1  pumilio homolog 1 isoform X22

    46. XM_063288047.1 → XP_063144117.1  pumilio homolog 1 isoform X24

    47. XM_063288053.1 → XP_063144123.1  pumilio homolog 1 isoform X33

    48. XM_063288055.1 → XP_063144125.1  pumilio homolog 1 isoform X34

    49. XM_063288054.1 → XP_063144124.1  pumilio homolog 1 isoform X33

    Nucleotide Protein Strain
    Heading Accession and Version

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