Ccnk cyclin K [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ccnkprovided by RGD
Official Full Name: cyclin Kprovided by RGD
Primary source: RGD:1595690
See related: EnsemblRapid:ENSRNOG00000006985 AllianceGenome:RGD:1595690
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
Summary: Predicted to enable cyclin-dependent protein serine/threonine kinase activator activity; protein kinase binding activity; and protein serine/threonine kinase activity. Predicted to be involved in negative regulation by host of viral genome replication; positive regulation of DNA-templated transcription, elongation; and positive regulation of phosphorylation of RNA polymerase II C-terminal domain serine 2 residues. Predicted to act upstream of or within cellular response to DNA damage stimulus; in utero embryonic development; and negative regulation of stem cell differentiation. Predicted to be located in nucleoplasm. Predicted to be part of cyclin K-CDK12 complex; cyclin K-CDK13 complex; and cyclin/CDK positive transcription elongation factor complex. Predicted to be active in nucleus. Orthologous to human CCNK (cyclin K). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Testes (RPKM 60.1), Spleen (RPKM 47.8) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 6q32

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	6	NC_086024.1 (132854428..132877604)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	6	NC_051341.1 (127090115..127113195)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	6	NC_005105.4 (132090235..132113560)

Chromosome 6 - NC_086024.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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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

Function	Evidence Code	Pubs
enables RNA polymerase II CTD heptapeptide repeat kinase activity	ISO Inferred from Sequence Orthology more info
enables cyclin-dependent protein serine/threonine kinase activator activity	IBA Inferred from Biological aspect of Ancestor more info
enables cyclin-dependent protein serine/threonine kinase activity	ISO Inferred from Sequence Orthology more info
enables protein kinase binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA damage response	ISO Inferred from Sequence Orthology more info
involved_in biological_process	ND No biological Data available more info
acts_upstream_of_or_within in utero embryonic development	ISO Inferred from Sequence Orthology more info
involved_in negative regulation by host of viral genome replication	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of stem cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription, elongation	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of transcription elongation by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in regulation of cell cycle	IEA Inferred from Electronic Annotation more info
involved_in regulation of signal transduction	ISO Inferred from Sequence Orthology more info
involved_in transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of cyclin K-CDK12 complex	ISO Inferred from Sequence Orthology more info
part_of cyclin K-CDK13 complex	ISO Inferred from Sequence Orthology more info
part_of cyclin/CDK positive transcription elongation factor complex	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: cyclin-K

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_001109672.1 → NP_001103142.1 cyclin-K

See identical proteins and their annotated locations for NP_001103142.1

Status: PROVISIONAL

Source sequence(s)

BC129121

UniProtKB/TrEMBL

A1L1L5, F7EZL5

Conserved Domains (2) summary

cd20530
Location:40 → 154

CYCLIN_CCNK_rpt1; first cyclin box found in cyclin-K (CCNK) and similar proteins

cd20531
Location:158 → 258

CYCLIN_CCNK_rpt2; second cyclin box found in cyclin-K (CCNK) and similar proteins

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_086024.1 Reference GRCr8

Range

132854428..132877604

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006240549.5 → XP_006240611.1 cyclin-K isoform X1

See identical proteins and their annotated locations for XP_006240611.1

UniProtKB/TrEMBL

A1L1L5, F7EZL5

Conserved Domains (2) summary

cd20530
Location:40 → 154

CYCLIN_CCNK_rpt1; first cyclin box found in cyclin-K (CCNK) and similar proteins

cd20531
Location:158 → 258

CYCLIN_CCNK_rpt2; second cyclin box found in cyclin-K (CCNK) and similar proteins
XM_063262339.1 → XP_063118409.1 cyclin-K isoform X1

UniProtKB/TrEMBL

A1L1L5, F7EZL5
XM_063262340.1 → XP_063118410.1 cyclin-K isoform X1

UniProtKB/TrEMBL

A1L1L5, F7EZL5

Related

ENSRNOP00000074580.1, ENSRNOT00000083208.3
XM_063262341.1 → XP_063118411.1 cyclin-K isoform X1

UniProtKB/TrEMBL

A1L1L5, F7EZL5
XM_039112762.2 → XP_038968690.1 cyclin-K isoform X1

UniProtKB/TrEMBL

A1L1L5, F7EZL5

Conserved Domains (2) summary

cd20530
Location:40 → 154

CYCLIN_CCNK_rpt1; first cyclin box found in cyclin-K (CCNK) and similar proteins

cd20531
Location:158 → 258

CYCLIN_CCNK_rpt2; second cyclin box found in cyclin-K (CCNK) and similar proteins
XM_006240551.5 → XP_006240613.1 cyclin-K isoform X1

See identical proteins and their annotated locations for XP_006240613.1

UniProtKB/TrEMBL

A1L1L5, F7EZL5

Conserved Domains (2) summary

cd20530
Location:40 → 154

CYCLIN_CCNK_rpt1; first cyclin box found in cyclin-K (CCNK) and similar proteins

cd20531
Location:158 → 258

CYCLIN_CCNK_rpt2; second cyclin box found in cyclin-K (CCNK) and similar proteins