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    Rabepk Rab9 effector protein with kelch motifs [ Rattus norvegicus (Norway rat) ]

    Gene ID: 296649, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Rabepkprovided by RGD
    Official Full Name
    Rab9 effector protein with kelch motifsprovided by RGD
    Primary source
    RGD:1310612
    See related
    EnsemblRapid:ENSRNOG00000018591 AllianceGenome:RGD:1310612
    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 be located in intracellular membrane-bounded organelle. Orthologous to human RABEPK (Rab9 effector protein with kelch motifs). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Testes (RPKM 92.4), Brain (RPKM 47.6) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Rabepk in Genome Data Viewer
    Location:
    3p11
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (38460205..38481077, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (18061299..18083191, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (13845352..13865843, complement)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene GTPase activating protein and VPS9 domains 1 Neighboring gene heat shock protein family A (Hsp70) member 5 Neighboring gene F-box and WD repeat domain containing 2 Neighboring gene beta-1,3-galactosyltransferase 9

    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. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article
    2. 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

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Clone Names

    • 9530020d24rik

    Gene Ontology Provided by RGD

    Component Evidence Code Pubs
    located_in endosome membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    rab9 effector protein with kelch motifs
    Names
    Rab9 effector p40

    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_001024871.1 → NP_001020042.2  rab9 effector protein with kelch motifs

      Status: VALIDATED

      Source sequence(s)
      BC097415
      UniProtKB/TrEMBL
      A0A8L2QDI4
      Related
      ENSRNOP00000025194.6, ENSRNOT00000025194.7
      Conserved Domains (4) summary
      smart00612
      Location:272 → 317
      Kelch; Kelch domain
      sd00038
      Location:102 → 151
      Kelch; KELCH repeat [structural motif]
      pfam01344
      Location:208 → 251
      Kelch_1; Kelch motif
      pfam13415
      Location:165 → 217
      Kelch_3; Galactose oxidase, central 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_086021.1 Reference GRCr8

      Range
      38460205..38481077 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063283513.1 → XP_063139583.1  rab9 effector protein with kelch motifs isoform X4

      UniProtKB/TrEMBL
      A0A8L2QDI4

    2. XM_039104773.2 → XP_038960701.1  rab9 effector protein with kelch motifs isoform X12

      Conserved Domains (3) summary
      PLN02193
      Location:114 → 282
      PLN02193; nitrile-specifier protein
      sd00038
      Location:82 → 123
      Kelch; KELCH repeat [structural motif]
      pfam13415
      Location:89 → 135
      Kelch_3; Galactose oxidase, central domain

    3. XM_039104770.2 → XP_038960698.1  rab9 effector protein with kelch motifs isoform X3

      Conserved Domains (4) summary
      PLN02193
      Location:151 → 319
      PLN02193; nitrile-specifier protein
      sd00038
      Location:111 → 160
      Kelch; KELCH repeat [structural motif]
      pfam07646
      Location:55 → 105
      Kelch_2; Kelch motif
      pfam13415
      Location:124 → 172
      Kelch_3; Galactose oxidase, central domain

    4. XM_063283518.1 → XP_063139588.1  rab9 effector protein with kelch motifs isoform X18

    5. XM_006233964.5 → XP_006234026.1  rab9 effector protein with kelch motifs isoform X13

      See identical proteins and their annotated locations for XP_006234026.1

      UniProtKB/TrEMBL
      A0A8I6ABJ1
      Conserved Domains (4) summary
      smart00612
      Location:228 → 273
      Kelch; Kelch domain
      sd00038
      Location:66 → 107
      Kelch; KELCH repeat [structural motif]
      pfam01344
      Location:164 → 207
      Kelch_1; Kelch motif
      pfam13415
      Location:121 → 173
      Kelch_3; Galactose oxidase, central domain

    6. XM_063283517.1 → XP_063139587.1  rab9 effector protein with kelch motifs isoform X17

    7. XM_063283516.1 → XP_063139586.1  rab9 effector protein with kelch motifs isoform X16

      UniProtKB/TrEMBL
      A0A8I5ZP58

    8. XM_063283515.1 → XP_063139585.1  rab9 effector protein with kelch motifs isoform X8

      Related
      ENSRNOP00000102011.1, ENSRNOT00000140923.1

    9. XM_006233957.5 → XP_006234019.1  rab9 effector protein with kelch motifs isoform X2

      See identical proteins and their annotated locations for XP_006234019.1

      UniProtKB/Swiss-Prot
      Q4V8F4
      UniProtKB/TrEMBL
      A6JUC9
      Related
      ENSRNOP00000099657.1, ENSRNOT00000136040.1
      Conserved Domains (4) summary
      smart00612
      Location:256 → 301
      Kelch; Kelch domain
      sd00038
      Location:86 → 135
      Kelch; KELCH repeat [structural motif]
      pfam01344
      Location:192 → 235
      Kelch_1; Kelch motif
      pfam13415
      Location:149 → 201
      Kelch_3; Galactose oxidase, central domain

    10. XM_008761728.4 → XP_008759950.1  rab9 effector protein with kelch motifs isoform X5

      See identical proteins and their annotated locations for XP_008759950.1

      Conserved Domains (4) summary
      smart00612
      Location:265 → 310
      Kelch; Kelch domain
      sd00038
      Location:95 → 144
      Kelch; KELCH repeat [structural motif]
      pfam01344
      Location:201 → 244
      Kelch_1; Kelch motif
      pfam13415
      Location:158 → 210
      Kelch_3; Galactose oxidase, central domain

    11. XM_063283514.1 → XP_063139584.1  rab9 effector protein with kelch motifs isoform X6

    12. XM_063283512.1 → XP_063139582.1  rab9 effector protein with kelch motifs isoform X2

      UniProtKB/Swiss-Prot
      Q4V8F4
      UniProtKB/TrEMBL
      A6JUC9
      Related
      ENSRNOP00000104277.1, ENSRNOT00000164921.1

    13. XM_006233967.3 → XP_006234029.1  rab9 effector protein with kelch motifs isoform X14

      See identical proteins and their annotated locations for XP_006234029.1

      Conserved Domains (4) summary
      smart00612
      Location:210 → 255
      Kelch; Kelch domain
      sd00038
      Location:48 → 89
      Kelch; KELCH repeat [structural motif]
      pfam01344
      Location:146 → 189
      Kelch_1; Kelch motif
      pfam13415
      Location:103 → 155
      Kelch_3; Galactose oxidase, central domain

    14. XM_006233958.3 → XP_006234020.1  rab9 effector protein with kelch motifs isoform X2

      See identical proteins and their annotated locations for XP_006234020.1

      UniProtKB/Swiss-Prot
      Q4V8F4
      UniProtKB/TrEMBL
      A6JUC9
      Conserved Domains (4) summary
      smart00612
      Location:256 → 301
      Kelch; Kelch domain
      sd00038
      Location:86 → 135
      Kelch; KELCH repeat [structural motif]
      pfam01344
      Location:192 → 235
      Kelch_1; Kelch motif
      pfam13415
      Location:149 → 201
      Kelch_3; Galactose oxidase, central domain

    15. XM_039104778.2 → XP_038960706.1  rab9 effector protein with kelch motifs isoform X19

      Conserved Domains (3) summary
      PLN02193
      Location:59 → 227
      PLN02193; nitrile-specifier protein
      sd00038
      Location:19 → 68
      Kelch; KELCH repeat [structural motif]
      pfam13415
      Location:32 → 80
      Kelch_3; Galactose oxidase, central domain

    16. XM_039104779.2 → XP_038960707.1  rab9 effector protein with kelch motifs isoform X20

      Conserved Domains (2) summary
      PLN02193
      Location:8 → 176
      PLN02193; nitrile-specifier protein
      sd00038
      Location:21 → 71
      Kelch; KELCH repeat [structural motif]

    17. XM_039104776.2 → XP_038960704.1  rab9 effector protein with kelch motifs isoform X15

      Conserved Domains (3) summary
      PLN02153
      Location:105 → 216
      PLN02153; epithiospecifier protein
      sd00038
      Location:66 → 107
      Kelch; KELCH repeat [structural motif]
      pfam13415
      Location:73 → 119
      Kelch_3; Galactose oxidase, central domain

    18. XM_008761732.4 → XP_008759954.2  rab9 effector protein with kelch motifs isoform X7

      Conserved Domains (2) summary
      PLN02193
      Location:97 → 265
      PLN02193; nitrile-specifier protein
      sd00038
      Location:110 → 161
      Kelch; KELCH repeat [structural motif]

    19. XM_008761735.4 → XP_008759957.2  rab9 effector protein with kelch motifs isoform X10

      Conserved Domains (3) summary
      PLN02193
      Location:76 → 251
      PLN02193; nitrile-specifier protein
      sd00038
      Location:96 → 147
      Kelch; KELCH repeat [structural motif]
      pfam13418
      Location:39 → 85
      Kelch_4; Galactose oxidase, central domain

    20. XM_039104771.2 → XP_038960699.1  rab9 effector protein with kelch motifs isoform X9

      Conserved Domains (3) summary
      PLN02193
      Location:84 → 252
      PLN02193; nitrile-specifier protein
      sd00038
      Location:97 → 148
      Kelch; KELCH repeat [structural motif]
      pfam13418
      Location:39 → 86
      Kelch_4; Galactose oxidase, central domain

    21. XM_039104772.2 → XP_038960700.1  rab9 effector protein with kelch motifs isoform X11

      Conserved Domains (3) summary
      PLN02153
      Location:142 → 253
      PLN02153; epithiospecifier protein
      PLN02193
      Location:34 → 185
      PLN02193; nitrile-specifier protein
      sd00038
      Location:95 → 145
      Kelch; KELCH repeat [structural motif]

    22. XM_008761725.4 → XP_008759947.2  rab9 effector protein with kelch motifs isoform X1

      Conserved Domains (3) summary
      PLN02193
      Location:134 → 302
      PLN02193; nitrile-specifier protein
      sd00038
      Location:95 → 143
      Kelch; KELCH repeat [structural motif]
      pfam07646
      Location:39 → 89
      Kelch_2; Kelch motif

    23. XM_063283519.1 → XP_063139589.1  rab9 effector protein with kelch motifs isoform X19

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q4V8F4.1 GenPept UniProtKB/Swiss-Prot:Q4V8F4

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