Skic8 SKI8 subunit of superkiller complex [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Skic8provided by RGD
Official Full Name: SKI8 subunit of superkiller complexprovided by RGD
Primary source: RGD:1308228
See related: Ensembl:ENSRNOG00000012803 AllianceGenome:RGD:1308228
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: Ski8; Wdr61; RGD1308228
Summary: Predicted to be involved in several processes, including histone H3-K4 trimethylation; positive regulation of histone methylation; and transcription elongation from RNA polymerase II promoter. Predicted to be located in cytosol; nucleoplasm; and transcriptionally active chromatin. Predicted to be part of Cdc73/Paf1 complex and Ski complex. Orthologous to human WDR61 (WD repeat domain 61). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Kidney (RPKM 189.9), Lung (RPKM 148.2) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 8q24

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	8	NC_086026.1 (63999669..64016959, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	8	NC_051343.1 (55103542..55120837, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	8	NC_005107.4 (59296339..59313663, complement)

Chromosome 8 - NC_086026.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

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Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Gene Ontology Provided by RGD

Process	Evidence Code	Pubs
involved_in Wnt signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of myeloid cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of myeloid cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of myeloid cell differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay	IEA Inferred from Electronic Annotation more info
involved_in nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay	ISO Inferred from Sequence Orthology more info
involved_in nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay	ISS Inferred from Sequence or Structural Similarity more info
involved_in rescue of stalled ribosome	IEA Inferred from Electronic Annotation more info
involved_in rescue of stalled ribosome	ISO Inferred from Sequence Orthology more info
involved_in rescue of stalled ribosome	ISS Inferred from Sequence or Structural Similarity more info
involved_in transcription elongation by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in transcription elongation by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in transcription elongation by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
part_of Cdc73/Paf1 complex	IBA Inferred from Biological aspect of Ancestor more info
part_of Cdc73/Paf1 complex	IEA Inferred from Electronic Annotation more info
part_of Cdc73/Paf1 complex	ISO Inferred from Sequence Orthology more info
part_of Cdc73/Paf1 complex	ISS Inferred from Sequence or Structural Similarity more info
part_of Ski complex	IEA Inferred from Electronic Annotation more info
part_of Ski complex	ISO Inferred from Sequence Orthology more info
part_of Ski complex	ISS Inferred from Sequence or Structural Similarity more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
part_of euchromatin	IEA Inferred from Electronic Annotation more info
part_of euchromatin	ISO Inferred from Sequence Orthology more info
part_of euchromatin	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: superkiller complex protein 8

Names: SKI8 subunit of superkiller complex protein; WD repeat domain 61; WD repeat-containing protein 61

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)

NM_001025743.1 → NP_001020914.1 superkiller complex protein 8

See identical proteins and their annotated locations for NP_001020914.1

Status: PROVISIONAL

Source sequence(s)

BC098059

UniProtKB/Swiss-Prot

Q4V7A0

UniProtKB/TrEMBL

A6J4M6

Conserved Domains (2) summary

cd00200
Location:13 → 302

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:110 → 146

7WD40; WD40 repeat [structural motif]

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

NC_086026.1 Reference GRCr8

Range

63999669..64016959 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006243085.5 → XP_006243147.1 superkiller complex protein 8 isoform X1

See identical proteins and their annotated locations for XP_006243147.1

UniProtKB/Swiss-Prot

Q4V7A0

UniProtKB/TrEMBL

A6J4M6

Conserved Domains (2) summary

cd00200
Location:13 → 302

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:110 → 146

7WD40; WD40 repeat [structural motif]
XM_006243086.4 → XP_006243148.1 superkiller complex protein 8 isoform X1

See identical proteins and their annotated locations for XP_006243148.1

UniProtKB/Swiss-Prot

Q4V7A0

UniProtKB/TrEMBL

A6J4M6

Related

ENSRNOP00000073674.2

Conserved Domains (2) summary

cd00200
Location:13 → 302

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:110 → 146

7WD40; WD40 repeat [structural motif]
XM_017595735.3 → XP_017451224.1 superkiller complex protein 8 isoform X2

Conserved Domains (2) summary

cd00200
Location:14 → 204

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:12 → 48

7WD40; WD40 repeat [structural motif]
XM_063265747.1 → XP_063121817.1 superkiller complex protein 8 isoform X2
XM_039081731.2 → XP_038937659.1 superkiller complex protein 8 isoform X1

UniProtKB/Swiss-Prot

Q4V7A0

UniProtKB/TrEMBL

A6J4M6

Conserved Domains (2) summary

cd00200
Location:13 → 302

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:110 → 146

7WD40; WD40 repeat [structural motif]
XM_006243087.4 → XP_006243149.1 superkiller complex protein 8 isoform X2

Conserved Domains (2) summary

cd00200
Location:14 → 204

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:12 → 48

7WD40; WD40 repeat [structural motif]
XM_063265748.1 → XP_063121818.1 superkiller complex protein 8 isoform X2