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Phf20l1 PHD finger protein 20-like 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 314964, updated on 27-Nov-2024

Summary

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Official Symbol
Phf20l1provided by RGD
Official Full Name
PHD finger protein 20-like 1provided by RGD
Primary source
RGD:1560141
See related
EnsemblRapid:ENSRNOG00000005486 AllianceGenome:RGD:1560141
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 methylation-dependent protein binding activity. Predicted to be involved in negative regulation of proteasomal ubiquitin-dependent protein catabolic process and regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. Predicted to be part of NSL complex. Orthologous to human PHF20L1 (PHD finger protein 20 like 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Heart (RPKM 185.3), Brain (RPKM 174.9) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Phf20l1 in Genome Data Viewer
Location:
7q33
Exon count:
25
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (100219598..100285580)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (98330580..98396526)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (107406948..107445219) , (108613731..108759741)

Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene Rab geranylgeranyltransferase subunit alpha, pseudogene 2 Neighboring gene transmembrane protein 71 Neighboring gene U2 spliceosomal RNA Neighboring gene thyroglobulin Neighboring gene src-like adaptor

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
  • 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. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  2. 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

Clone Names

  • MGC112686

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables methylation-dependent protein binding IEA
Inferred from Electronic Annotation
more info
  
enables methylation-dependent protein binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in negative regulation of proteasomal ubiquitin-dependent protein catabolic process IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of proteasomal ubiquitin-dependent protein catabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of proteasomal ubiquitin-dependent protein catabolic process ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in negative regulation of protein catabolic process 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 NSL complex IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
PHD finger protein 20-like protein 1
Names
tudor domain-containing protein PHF20L1

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_001271439.1 → NP_001258368.1  PHD finger protein 20-like protein 1

    See identical proteins and their annotated locations for NP_001258368.1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000007
    UniProtKB/Swiss-Prot
    Q4V9H5
    UniProtKB/TrEMBL
    A0A8I6A3M7, A6HRR4
    Related
    ENSRNOP00000088843.1, ENSRNOT00000106420.2
    Conserved Domains (5) summary
    cd04508
    Location:90 → 135
    TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
    cd15633
    Location:683 → 728
    PHD_PHF20L1; PHD finger found in PHD finger protein 20-like protein 1 (P20L1)
    pfam12618
    Location:210 → 317
    DUF3776; Protein of unknown function (DUF3776)
    pfam16660
    Location:318 → 383
    PHD20L1_u1; PHD finger protein 20-like protein 1
    cl17705
    Location:3 → 68
    MBT; mbt repeat

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_086025.1 Reference GRCr8

    Range
    100219598..100285580
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039079188.2 → XP_038935116.1  PHD finger protein 20-like protein 1 isoform X1

    UniProtKB/TrEMBL
    A0A8I6A3M7
    Conserved Domains (5) summary
    PTZ00449
    Location:320 → 524
    PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
    cd15633
    Location:688 → 733
    PHD_PHF20L1; PHD finger found in PHD finger protein 20-like protein 1 (P20L1)
    pfam16660
    Location:323 → 388
    PHD20L1_u1; PHD finger protein 20-like protein 1
    cd20454
    Location:86 → 143
    Tudor_PHF20L1; Tudor domain found in PHD finger protein 20-like protein 1 (PHF20L1) and similar proteins
    cl17705
    Location:3 → 68
    MBT; mbt repeat

  2. XM_063263540.1 → XP_063119610.1  PHD finger protein 20-like protein 1 isoform X5

  3. XM_063263542.1 → XP_063119612.1  PHD finger protein 20-like protein 1 isoform X6

  4. XM_063263545.1 → XP_063119615.1  PHD finger protein 20-like protein 1 isoform X7

  5. XM_063263548.1 → XP_063119618.1  PHD finger protein 20-like protein 1 isoform X9

  6. XM_063263551.1 → XP_063119621.1  PHD finger protein 20-like protein 1 isoform X19

  7. XM_063263553.1 → XP_063119623.1  PHD finger protein 20-like protein 1 isoform X21

  8. XM_063263554.1 → XP_063119624.1  PHD finger protein 20-like protein 1 isoform X22

    UniProtKB/TrEMBL
    A6HRR5

  9. XM_039079187.2 → XP_038935115.1  PHD finger protein 20-like protein 1 isoform X1

    UniProtKB/TrEMBL
    A0A8I6A3M7
    Conserved Domains (5) summary
    PTZ00449
    Location:320 → 524
    PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
    cd15633
    Location:688 → 733
    PHD_PHF20L1; PHD finger found in PHD finger protein 20-like protein 1 (P20L1)
    pfam16660
    Location:323 → 388
    PHD20L1_u1; PHD finger protein 20-like protein 1
    cd20454
    Location:86 → 143
    Tudor_PHF20L1; Tudor domain found in PHD finger protein 20-like protein 1 (PHF20L1) and similar proteins
    cl17705
    Location:3 → 68
    MBT; mbt repeat

  10. XM_063263539.1 → XP_063119609.1  PHD finger protein 20-like protein 1 isoform X5

  11. XM_063263541.1 → XP_063119611.1  PHD finger protein 20-like protein 1 isoform X6

  12. XM_063263544.1 → XP_063119614.1  PHD finger protein 20-like protein 1 isoform X7

  13. XM_063263547.1 → XP_063119617.1  PHD finger protein 20-like protein 1 isoform X9

  14. XM_039079186.1 → XP_038935114.1  PHD finger protein 20-like protein 1 isoform X1

    UniProtKB/TrEMBL
    A0A8I6A3M7
    Conserved Domains (5) summary
    PTZ00449
    Location:320 → 524
    PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
    cd15633
    Location:688 → 733
    PHD_PHF20L1; PHD finger found in PHD finger protein 20-like protein 1 (P20L1)
    pfam16660
    Location:323 → 388
    PHD20L1_u1; PHD finger protein 20-like protein 1
    cd20454
    Location:86 → 143
    Tudor_PHF20L1; Tudor domain found in PHD finger protein 20-like protein 1 (PHF20L1) and similar proteins
    cl17705
    Location:3 → 68
    MBT; mbt repeat

  15. XM_039079189.1 → XP_038935117.1  PHD finger protein 20-like protein 1 isoform X2

    UniProtKB/TrEMBL
    A0A8I6A3M7
    Related
    ENSRNOP00000086359.2, ENSRNOT00000095136.2
    Conserved Domains (5) summary
    PTZ00449
    Location:320 → 524
    PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
    cd15633
    Location:688 → 733
    PHD_PHF20L1; PHD finger found in PHD finger protein 20-like protein 1 (P20L1)
    pfam16660
    Location:323 → 388
    PHD20L1_u1; PHD finger protein 20-like protein 1
    cd20454
    Location:86 → 143
    Tudor_PHF20L1; Tudor domain found in PHD finger protein 20-like protein 1 (PHF20L1) and similar proteins
    cl17705
    Location:3 → 68
    MBT; mbt repeat

  16. XM_039079190.1 → XP_038935118.1  PHD finger protein 20-like protein 1 isoform X3

    UniProtKB/TrEMBL
    A0A8I6A3M7
    Conserved Domains (5) summary
    PTZ00449
    Location:319 → 523
    PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
    cd15633
    Location:687 → 732
    PHD_PHF20L1; PHD finger found in PHD finger protein 20-like protein 1 (P20L1)
    pfam16660
    Location:322 → 387
    PHD20L1_u1; PHD finger protein 20-like protein 1
    cd20454
    Location:86 → 143
    Tudor_PHF20L1; Tudor domain found in PHD finger protein 20-like protein 1 (PHF20L1) and similar proteins
    cl17705
    Location:3 → 68
    MBT; mbt repeat

  17. XM_063263538.1 → XP_063119608.1  PHD finger protein 20-like protein 1 isoform X4

  18. XM_039079191.1 → XP_038935119.1  PHD finger protein 20-like protein 1 isoform X5

    UniProtKB/TrEMBL
    A0A8I6A3M7
    Conserved Domains (5) summary
    PTZ00449
    Location:316 → 520
    PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
    cd15633
    Location:684 → 729
    PHD_PHF20L1; PHD finger found in PHD finger protein 20-like protein 1 (P20L1)
    pfam16660
    Location:319 → 384
    PHD20L1_u1; PHD finger protein 20-like protein 1
    cd20454
    Location:86 → 143
    Tudor_PHF20L1; Tudor domain found in PHD finger protein 20-like protein 1 (PHF20L1) and similar proteins
    cl17705
    Location:3 → 68
    MBT; mbt repeat

  19. XM_039079192.1 → XP_038935120.1  PHD finger protein 20-like protein 1 isoform X6

    UniProtKB/TrEMBL
    A0A8I6A3M7
    Conserved Domains (5) summary
    PTZ00449
    Location:315 → 519
    PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
    cd15633
    Location:683 → 728
    PHD_PHF20L1; PHD finger found in PHD finger protein 20-like protein 1 (P20L1)
    pfam16660
    Location:318 → 383
    PHD20L1_u1; PHD finger protein 20-like protein 1
    cd20454
    Location:86 → 143
    Tudor_PHF20L1; Tudor domain found in PHD finger protein 20-like protein 1 (PHF20L1) and similar proteins
    cl17705
    Location:3 → 68
    MBT; mbt repeat

  20. XM_039079193.1 → XP_038935121.1  PHD finger protein 20-like protein 1 isoform X7

    UniProtKB/TrEMBL
    A0A8I6A3M7
    Conserved Domains (5) summary
    PTZ00449
    Location:290 → 494
    PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
    cd15633
    Location:658 → 703
    PHD_PHF20L1; PHD finger found in PHD finger protein 20-like protein 1 (P20L1)
    pfam16660
    Location:293 → 358
    PHD20L1_u1; PHD finger protein 20-like protein 1
    cd20454
    Location:86 → 144
    Tudor_PHF20L1; Tudor domain found in PHD finger protein 20-like protein 1 (PHF20L1) and similar proteins
    cl17705
    Location:3 → 68
    MBT; mbt repeat

  21. XM_063263546.1 → XP_063119616.1  PHD finger protein 20-like protein 1 isoform X8

    UniProtKB/TrEMBL
    A0A1W2Q6A4
    Related
    ENSRNOP00000076201.2, ENSRNOT00000093254.3

  22. XM_063263549.1 → XP_063119619.1  PHD finger protein 20-like protein 1 isoform X9

  23. XM_039079194.1 → XP_038935122.1  PHD finger protein 20-like protein 1 isoform X10

    UniProtKB/TrEMBL
    A0A8I6A3M7
    Conserved Domains (5) summary
    PTZ00449
    Location:289 → 493
    PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
    cd15633
    Location:657 → 702
    PHD_PHF20L1; PHD finger found in PHD finger protein 20-like protein 1 (P20L1)
    pfam16660
    Location:292 → 357
    PHD20L1_u1; PHD finger protein 20-like protein 1
    cd20454
    Location:86 → 144
    Tudor_PHF20L1; Tudor domain found in PHD finger protein 20-like protein 1 (PHF20L1) and similar proteins
    cl17705
    Location:3 → 68
    MBT; mbt repeat

  24. XM_039079198.2 → XP_038935126.1  PHD finger protein 20-like protein 1 isoform X14

    Conserved Domains (5) summary
    PTZ00449
    Location:320 → 524
    PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
    cd15633
    Location:688 → 733
    PHD_PHF20L1; PHD finger found in PHD finger protein 20-like protein 1 (P20L1)
    pfam16660
    Location:323 → 388
    PHD20L1_u1; PHD finger protein 20-like protein 1
    cd20454
    Location:86 → 143
    Tudor_PHF20L1; Tudor domain found in PHD finger protein 20-like protein 1 (PHF20L1) and similar proteins
    cl17705
    Location:3 → 68
    MBT; mbt repeat

  25. XM_039079199.2 → XP_038935127.1  PHD finger protein 20-like protein 1 isoform X15

    Conserved Domains (5) summary
    PTZ00449
    Location:320 → 524
    PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
    pfam16660
    Location:323 → 388
    PHD20L1_u1; PHD finger protein 20-like protein 1
    cd20454
    Location:86 → 143
    Tudor_PHF20L1; Tudor domain found in PHD finger protein 20-like protein 1 (PHF20L1) and similar proteins
    cl17705
    Location:3 → 68
    MBT; mbt repeat
    cl22851
    Location:688 → 707
    PHD_SF; PHD finger superfamily

  26. XM_039079200.2 → XP_038935128.1  PHD finger protein 20-like protein 1 isoform X16

    Conserved Domains (4) summary
    PTZ00449
    Location:320 → 524
    PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
    pfam16660
    Location:323 → 388
    PHD20L1_u1; PHD finger protein 20-like protein 1
    cd20454
    Location:86 → 143
    Tudor_PHF20L1; Tudor domain found in PHD finger protein 20-like protein 1 (PHF20L1) and similar proteins
    cl17705
    Location:3 → 68
    MBT; mbt repeat

  27. XM_039079202.2 → XP_038935130.1  PHD finger protein 20-like protein 1 isoform X18

    Conserved Domains (4) summary
    PTZ00449
    Location:320 → 524
    PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
    pfam16660
    Location:323 → 388
    PHD20L1_u1; PHD finger protein 20-like protein 1
    cd20454
    Location:86 → 143
    Tudor_PHF20L1; Tudor domain found in PHD finger protein 20-like protein 1 (PHF20L1) and similar proteins
    cl17705
    Location:3 → 68
    MBT; mbt repeat

  28. XM_063263552.1 → XP_063119622.1  PHD finger protein 20-like protein 1 isoform X20

  29. XM_039079195.1 → XP_038935123.1  PHD finger protein 20-like protein 1 isoform X11

    UniProtKB/TrEMBL
    A0A8I6A3M7
    Conserved Domains (3) summary
    PTZ00449
    Location:190 → 394
    PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
    cd15633
    Location:558 → 603
    PHD_PHF20L1; PHD finger found in PHD finger protein 20-like protein 1 (P20L1)
    pfam16660
    Location:193 → 258
    PHD20L1_u1; PHD finger protein 20-like protein 1

  30. XM_039079196.1 → XP_038935124.1  PHD finger protein 20-like protein 1 isoform X12

    UniProtKB/TrEMBL
    A0A8I6A3M7
    Conserved Domains (3) summary
    PTZ00449
    Location:186 → 390
    PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
    cd15633
    Location:554 → 599
    PHD_PHF20L1; PHD finger found in PHD finger protein 20-like protein 1 (P20L1)
    pfam16660
    Location:189 → 254
    PHD20L1_u1; PHD finger protein 20-like protein 1

  31. XM_039079197.1 → XP_038935125.1  PHD finger protein 20-like protein 1 isoform X13

    UniProtKB/TrEMBL
    A0A8I6A3M7
    Conserved Domains (4) summary
    PTZ00449
    Location:160 → 364
    PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
    cd15633
    Location:528 → 573
    PHD_PHF20L1; PHD finger found in PHD finger protein 20-like protein 1 (P20L1)
    pfam16660
    Location:163 → 228
    PHD20L1_u1; PHD finger protein 20-like protein 1
    cl02573
    Location:1 → 14
    Tudor_SF; Tudor domain superfamily

  32. XM_039079201.2 → XP_038935129.1  PHD finger protein 20-like protein 1 isoform X17

    Conserved Domains (1) summary
    cd15633
    Location:262 → 307
    PHD_PHF20L1; PHD finger found in PHD finger protein 20-like protein 1 (P20L1)

RNA

  1. XR_005486634.2 RNA Sequence

  2. XR_005486636.2 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001025702.1: Suppressed sequence

    Description
    NM_001025702.1: This RefSeq was suppressed temporarily based on the calculation that the encoded protein was shorter than proteins from the putative ortholog from chicken: PHF20L1 (GeneID:420323).
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q4V9H5.2 GenPept UniProtKB/Swiss-Prot:Q4V9H5

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