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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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