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Slf2 SMC5-SMC6 complex localization factor 2 [ Rattus norvegicus (Norway rat) ]

Gene ID: 499360, updated on 21-Jul-2018

Summary

Official Symbol
Slf2provided by RGD
Official Full Name
SMC5-SMC6 complex localization factor 2provided by RGD
Primary source
RGD:1560300
See related
Ensembl:ENSRNOG00000014482
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
Also known as
Fam178a; RGD1560300
Expression
Biased expression in Spleen (RPKM 130.9), Brain (RPKM 115.7) and 9 other tissues See more
Orthologs

Genomic context

See Slf2 in Genome Data Viewer
Location:
1q54
Exon count:
21
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (264670836..264733465)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 1 NC_005100.3 (272112614..272175856)

Chromosome 1 - NC_005100.4Genomic Context describing neighboring genes Neighboring gene paired box 2 Neighboring gene hypothetical LOC100363396 Neighboring gene 60S ribosomal protein L21 pseudogene Neighboring gene semaphorin 4G Neighboring gene mitochondrial ribosomal protein L43 Neighboring gene twinkle mtDNA helicase

Genomic regions, transcripts, and products

Expression

  • 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

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
protein-containing complex binding IEA
Inferred from Electronic Annotation
more info
 
protein-containing complex binding ISO
Inferred from Sequence Orthology
more info
 
ubiquitin protein ligase binding IEA
Inferred from Electronic Annotation
more info
 
ubiquitin protein ligase binding ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
chromatin IEA
Inferred from Electronic Annotation
more info
 
chromatin ISO
Inferred from Sequence Orthology
more info
 
intracellular membrane-bounded organelle ISO
Inferred from Sequence Orthology
more info
 
nucleus IEA
Inferred from Electronic Annotation
more info
 
nucleus ISO
Inferred from Sequence Orthology
more info
 
site of double-strand break IEA
Inferred from Electronic Annotation
more info
 
site of double-strand break ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
SMC5-SMC6 complex localization factor protein 2
Names
family with sequence similarity 178, member A
protein FAM178A

NCBI Reference Sequences (RefSeq)

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_001134612.1NP_001128084.1  SMC5-SMC6 complex localization factor protein 2

    See identical proteins and their annotated locations for NP_001128084.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473986
    UniProtKB/TrEMBL
    D3ZF72
    Related
    ENSRNOP00000031171.4, ENSRNOT00000034814.6
    Conserved Domains (1) summary
    pfam14816
    Location:6521018
    FAM178; Family of unknown function, FAM178

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference Rnor_6.0 Primary Assembly

Genomic

  1. NC_005100.4 Reference Rnor_6.0 Primary Assembly

    Range
    264670836..264733465
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017589590.1XP_017445079.1  SMC5-SMC6 complex localization factor protein 2 isoform X3

  2. XM_017589591.1XP_017445080.1  SMC5-SMC6 complex localization factor protein 2 isoform X4

  3. XM_006231550.3XP_006231612.1  SMC5-SMC6 complex localization factor protein 2 isoform X1

    Conserved Domains (1) summary
    pfam14816
    Location:6521019
    FAM178; Family of unknown function, FAM178
  4. XM_006231551.3XP_006231613.1  SMC5-SMC6 complex localization factor protein 2 isoform X2

    UniProtKB/TrEMBL
    A0A0G2JUU2
    Related
    ENSRNOP00000069230.1, ENSRNOT00000082412.1
    Conserved Domains (1) summary
    pfam14816
    Location:6521018
    FAM178; Family of unknown function, FAM178

Alternate Rn_Celera

Genomic

  1. AC_000069.1 Alternate Rn_Celera

    Range
    239594279..239656726
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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