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Hnrnpk heterogeneous nuclear ribonucleoprotein K [ Mus musculus (house mouse) ]

Gene ID: 15387, updated on 9-Dec-2024

Summary

Official Symbol
Hnrnpkprovided by MGI
Official Full Name
heterogeneous nuclear ribonucleoprotein Kprovided by MGI
Primary source
MGI:MGI:99894
See related
Ensembl:ENSMUSG00000021546 AllianceGenome:MGI:99894
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
KBBP; NOVA; Hnrpk
Summary
The protein encoded by this gene is a component of the heterogeneous nuclear ribonucleoprotein (hnRNP) complex, and is a poly-cytosine binding protein (PCBP). It is found in multiple subcellular compartments including the nucleus, cytoplasm and mitochondria. This gene product is thought to interact with RNA, DNA, and protein, and is involved in multiple cellular processes, including transcription, chromatin remodeling, DNA damage response, signal transduction, mRNA splicing, export, and translation. Multiple transcript variants and protein isoforms exist, with some isoforms containing a unique C-terminus. There are four pseudogenes of this gene, found on chromosomes 2, 3, 7 and 13. [provided by RefSeq, Aug 2014]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 240.5), CNS E14 (RPKM 167.5) and 25 other tissues See more
Orthologs
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Genomic context

See Hnrnpk in Genome Data Viewer
Location:
13 B1; 13 31.04 cM
Exon count:
19
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (58538946..58551157, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (58391132..58403343, complement)

Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene kinesin family member 27 Neighboring gene STARR-seq mESC enhancer starr_34678 Neighboring gene microRNA 6369 Neighboring gene STARR-seq mESC enhancer starr_34680 Neighboring gene CapStarr-seq enhancer MGSCv37_chr13:58474531-58474732 Neighboring gene Q-nucleotide N-glycosylase 1 Neighboring gene STARR-positive B cell enhancer ABC_E8893 Neighboring gene CapStarr-seq enhancer MGSCv37_chr13:58504005-58504114 Neighboring gene microRNA 7-1 Neighboring gene RecQ mediated genome instability 1 Neighboring gene STARR-seq mESC enhancer starr_34681 Neighboring gene STARR-positive B cell enhancer ABC_E11546 Neighboring gene predicted gene, 33875 Neighboring gene predicted gene, 47918 Neighboring gene STARR-seq mESC enhancer starr_34684 Neighboring gene predicted gene, 40966

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (3) 
  • Targeted (3)  1 citation

Pathways from PubChem

Interactions

General gene information

Clone Names

  • MGC102032

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables ATPase binding  
enables C-rich single-stranded DNA binding  
enables DNA binding  
enables RNA binding PubMed 
enables actinin binding  
enables cis-regulatory region sequence-specific DNA binding  
enables double-stranded DNA binding  
enables heat shock protein binding  
enables identical protein binding  
enables identical protein binding  
enables lamin binding  
enables mRNA 3'-UTR binding  
enables mRNA CDS binding  
enables mRNA binding  
enables pre-mRNA 3'-splice site binding  
enables protein binding PubMed 
enables protein domain specific binding  
enables protein domain specific binding  
enables ribonucleoprotein complex binding  
enables single-stranded DNA binding  
Items 1 - 25 of 37
Process Evidence Code Pubs
involved_in RNA splicing  
involved_in cellular response to forskolin  
involved_in cellular response to insulin stimulus  
involved_in cerebral cortex development  
involved_in mRNA processing  
involved_in modulation of chemical synaptic transmission  
involved_in negative regulation of DNA-templated transcription  
involved_in negative regulation of DNA-templated transcription  
acts_upstream_of_or_within negative regulation of apoptotic process  
involved_in negative regulation of apoptotic process  
involved_in negative regulation of branching morphogenesis of a nerve  
involved_in negative regulation of gene expression  
acts_upstream_of_or_within negative regulation of mRNA splicing, via spliceosome PubMed 
involved_in negative regulation of transcription by RNA polymerase II  
involved_in ovarian follicle development  
involved_in positive regulation of RNA splicing  
involved_in positive regulation of dendrite extension  
involved_in positive regulation of dendritic spine development  
involved_in positive regulation of long-term synaptic potentiation  
acts_upstream_of positive regulation of low-density lipoprotein receptor activity  
involved_in positive regulation of myelination  
involved_in positive regulation of neuron projection development  
involved_in positive regulation of protein localization to cell surface  
involved_in positive regulation of receptor-mediated endocytosis  
acts_upstream_of positive regulation of receptor-mediated endocytosis  
involved_in positive regulation of synapse maturation  
involved_in positive regulation of synaptic transmission  
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II PubMed 
involved_in random inactivation of X chromosome  
acts_upstream_of_or_within regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator PubMed 
involved_in regulation of low-density lipoprotein particle clearance  
acts_upstream_of regulation of low-density lipoprotein particle clearance  
involved_in regulation of mRNA splicing, via spliceosome  
involved_in regulation of postsynapse organization  
involved_in regulation of transcription by RNA polymerase II  
involved_in regulation of transcription by RNA polymerase II  
involved_in regulatory ncRNA-mediated heterochromatin formation  
Items 1 - 25 of 37
Items 1 - 20 of 24
Component Evidence Code Pubs
located_in anchoring junction  
located_in axon terminus  
part_of catalytic step 2 spliceosome  
part_of catalytic step 2 spliceosome  
located_in cell cortex  
located_in cell projection  
located_in chromatin  
located_in chromatin  
is_active_in cytoplasm  
located_in cytoplasm  
located_in cytoplasm  
located_in cytoplasmic stress granule PubMed 
located_in dendritic spine  
is_active_in glutamatergic synapse  
located_in nucleoplasm  
located_in nucleoplasm  
is_active_in nucleus  
located_in nucleus  
located_in nucleus  
located_in podosome  
is_active_in postsynapse  
part_of protein-DNA complex  
part_of ribonucleoprotein complex  
part_of ribonucleoprotein complex  
Items 1 - 20 of 24

General protein information

Preferred Names
heterogeneous nuclear ribonucleoprotein 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)

  1. NM_001301340.1NP_001288269.1  heterogeneous nuclear ribonucleoprotein K isoform 1

    See identical proteins and their annotated locations for NP_001288269.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Variants 1, 2, and 3 encode the same isoform (1).
    Source sequence(s)
    AK011428, AK160615, AV367088, BC089328, BE993983
    Consensus CDS
    CCDS79199.1
    UniProtKB/TrEMBL
    Q3TL71, Q5FWJ5
    Related
    ENSMUSP00000153253.2, ENSMUST00000224182.2
    Conserved Domains (4) summary
    pfam08067
    Location:443
    ROKNT; ROKNT (NUC014) domain
    cd22432
    Location:42105
    KH-I_HNRNPK_rpt1; first type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
    cd22433
    Location:144213
    KH-I_HNRNPK_rpt2; second type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
    cd22434
    Location:387460
    KH-I_HNRNPK_rpt3; third type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
  2. NM_001301341.1NP_001288270.1  heterogeneous nuclear ribonucleoprotein K isoform 1

    See identical proteins and their annotated locations for NP_001288270.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1). Variants 1, 2, and 3 encode the same isoform (1).
    Source sequence(s)
    AK078777, AV367088, BC089328, BE993983
    Consensus CDS
    CCDS79199.1
    UniProtKB/TrEMBL
    Q3TL71, Q5FWJ5
    Related
    ENSMUSP00000112104.3, ENSMUST00000116403.9
    Conserved Domains (4) summary
    pfam08067
    Location:443
    ROKNT; ROKNT (NUC014) domain
    cd22432
    Location:42105
    KH-I_HNRNPK_rpt1; first type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
    cd22433
    Location:144213
    KH-I_HNRNPK_rpt2; second type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
    cd22434
    Location:387460
    KH-I_HNRNPK_rpt3; third type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
  3. NM_001301343.1NP_001288272.1  heterogeneous nuclear ribonucleoprotein K isoform 1

    See identical proteins and their annotated locations for NP_001288272.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR, compared to variant 1. Variants 1, 2, and 3 encode the same isoform (1).
    Source sequence(s)
    AK166927, AV367088, BC089328, BE993983, BY794631
    Consensus CDS
    CCDS79199.1
    UniProtKB/TrEMBL
    Q3TL71, Q5FWJ5
    Related
    ENSMUSP00000152935.2, ENSMUST00000225674.2
    Conserved Domains (4) summary
    pfam08067
    Location:443
    ROKNT; ROKNT (NUC014) domain
    cd22432
    Location:42105
    KH-I_HNRNPK_rpt1; first type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
    cd22433
    Location:144213
    KH-I_HNRNPK_rpt2; second type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
    cd22434
    Location:387460
    KH-I_HNRNPK_rpt3; third type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
  4. NM_001301344.1NP_001288273.1  heterogeneous nuclear ribonucleoprotein K isoform 3

    See identical proteins and their annotated locations for NP_001288273.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) lacks an in-frame exon compared to variant 1. It encodes isoform 3 which is shorter than isoform 1.
    Source sequence(s)
    AK011428, AK051313, AK151689, AK160615, AV367088, BC089328, BE993983
    Consensus CDS
    CCDS79198.1
    UniProtKB/TrEMBL
    B2M1R6, Q3TL71
    Related
    ENSMUSP00000135647.2, ENSMUST00000177019.8
    Conserved Domains (4) summary
    pfam08067
    Location:443
    ROKNT; ROKNT (NUC014) domain
    cd22432
    Location:42105
    KH-I_HNRNPK_rpt1; first type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
    cd22433
    Location:120189
    KH-I_HNRNPK_rpt2; second type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
    cd22434
    Location:363436
    KH-I_HNRNPK_rpt3; third type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
  5. NM_001301345.1NP_001288274.1  heterogeneous nuclear ribonucleoprotein K isoform 4

    See identical proteins and their annotated locations for NP_001288274.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) lacks an in-frame exon and uses an alternative splice site in the 3' terminal exon, which results in a frameshift, compared to variant 1. It encodes isoform 4 which is shorter and has a distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AK011428, AK051313, AV367088, BC089328, BE993983
    Consensus CDS
    CCDS79197.1
    UniProtKB/TrEMBL
    Q3U6X2
    Related
    ENSMUSP00000135354.2, ENSMUST00000176207.8
    Conserved Domains (4) summary
    pfam08067
    Location:443
    ROKNT; ROKNT (NUC014) domain
    cd22432
    Location:42105
    KH-I_HNRNPK_rpt1; first type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
    cd22433
    Location:120189
    KH-I_HNRNPK_rpt2; second type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
    cd22434
    Location:363436
    KH-I_HNRNPK_rpt3; third type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
  6. NM_001360490.1NP_001347419.1  heterogeneous nuclear ribonucleoprotein K isoform 2

    Status: REVIEWED

    Source sequence(s)
    AC154437
    Consensus CDS
    CCDS49283.1
    UniProtKB/Swiss-Prot
    P61979, Q8BGQ8
    UniProtKB/TrEMBL
    Q3TJ38, Q3TUA1
    Related
    ENSMUSP00000135833.2, ENSMUST00000177497.8
    Conserved Domains (4) summary
    pfam08067
    Location:443
    ROKNT; ROKNT (NUC014) domain
    cd22432
    Location:42105
    KH-I_HNRNPK_rpt1; first type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
    cd22433
    Location:144213
    KH-I_HNRNPK_rpt2; second type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
    cd22434
    Location:387460
    KH-I_HNRNPK_rpt3; third type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
  7. NM_001360491.1NP_001347420.1  heterogeneous nuclear ribonucleoprotein K isoform 5

    Status: REVIEWED

    Source sequence(s)
    AC154437
    UniProtKB/TrEMBL
    Q3TL71
    Conserved Domains (4) summary
    pfam08067
    Location:443
    ROKNT; ROKNT (NUC014) domain
    cd22432
    Location:42105
    KH-I_HNRNPK_rpt1; first type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
    cd22433
    Location:144213
    KH-I_HNRNPK_rpt2; second type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
    cd22434
    Location:382455
    KH-I_HNRNPK_rpt3; third type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
  8. NM_001360493.1NP_001347422.1  heterogeneous nuclear ribonucleoprotein K isoform 6

    Status: REVIEWED

    Source sequence(s)
    AC154437
    UniProtKB/TrEMBL
    Q3TJ38, Q3TUA1
    Conserved Domains (4) summary
    pfam08067
    Location:443
    ROKNT; ROKNT (NUC014) domain
    cd22432
    Location:42105
    KH-I_HNRNPK_rpt1; first type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
    cd22433
    Location:144213
    KH-I_HNRNPK_rpt2; second type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
    cd22434
    Location:382455
    KH-I_HNRNPK_rpt3; third type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
  9. NM_001360494.1NP_001347423.1  heterogeneous nuclear ribonucleoprotein K isoform 3

    Status: REVIEWED

    Source sequence(s)
    AC154437
    Consensus CDS
    CCDS79198.1
    UniProtKB/TrEMBL
    B2M1R6, Q3TL71
    Conserved Domains (4) summary
    pfam08067
    Location:443
    ROKNT; ROKNT (NUC014) domain
    cd22432
    Location:42105
    KH-I_HNRNPK_rpt1; first type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
    cd22433
    Location:120189
    KH-I_HNRNPK_rpt2; second type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
    cd22434
    Location:363436
    KH-I_HNRNPK_rpt3; third type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
  10. NM_001360495.1NP_001347424.1  heterogeneous nuclear ribonucleoprotein K isoform 4

    Status: REVIEWED

    Source sequence(s)
    AC154437
    Consensus CDS
    CCDS79197.1
    UniProtKB/TrEMBL
    Q3U6X2
    Conserved Domains (4) summary
    pfam08067
    Location:443
    ROKNT; ROKNT (NUC014) domain
    cd22432
    Location:42105
    KH-I_HNRNPK_rpt1; first type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
    cd22433
    Location:120189
    KH-I_HNRNPK_rpt2; second type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
    cd22434
    Location:363436
    KH-I_HNRNPK_rpt3; third type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
  11. NM_025279.3NP_079555.1  heterogeneous nuclear ribonucleoprotein K isoform 2

    See identical proteins and their annotated locations for NP_079555.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) uses an alternative splice site in the 3' terminal exon, which results in a frameshift, compared to variant 1. It encodes isoform 2 which has a distinct and shorter C-terminus compared to isoform 1.
    Source sequence(s)
    AK011428, AV367088, BC089328, BE993983
    Consensus CDS
    CCDS49283.1
    UniProtKB/Swiss-Prot
    P61979, Q8BGQ8
    UniProtKB/TrEMBL
    Q3TJ38, Q3TUA1
    Related
    ENSMUSP00000039269.8, ENSMUST00000043269.14
    Conserved Domains (4) summary
    pfam08067
    Location:443
    ROKNT; ROKNT (NUC014) domain
    cd22432
    Location:42105
    KH-I_HNRNPK_rpt1; first type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
    cd22433
    Location:144213
    KH-I_HNRNPK_rpt2; second type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
    cd22434
    Location:387460
    KH-I_HNRNPK_rpt3; third type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins

RNA

  1. NR_153501.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC154437
  2. NR_153502.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC154437
  3. NR_153503.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC154437
  4. NR_153504.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC154437

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000079.7 Reference GRCm39 C57BL/6J

    Range
    58538946..58551157 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006517103.5XP_006517166.1  heterogeneous nuclear ribonucleoprotein K isoform X1

    See identical proteins and their annotated locations for XP_006517166.1

    UniProtKB/TrEMBL
    Q3TL71, Q5FWJ5
    Conserved Domains (4) summary
    pfam08067
    Location:443
    ROKNT; ROKNT (NUC014) domain
    cd22432
    Location:42105
    KH-I_HNRNPK_rpt1; first type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
    cd22433
    Location:144213
    KH-I_HNRNPK_rpt2; second type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
    cd22434
    Location:387460
    KH-I_HNRNPK_rpt3; third type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
  2. XM_006517104.4XP_006517167.1  heterogeneous nuclear ribonucleoprotein K isoform X1

    See identical proteins and their annotated locations for XP_006517167.1

    UniProtKB/TrEMBL
    Q3TL71, Q5FWJ5
    Conserved Domains (4) summary
    pfam08067
    Location:443
    ROKNT; ROKNT (NUC014) domain
    cd22432
    Location:42105
    KH-I_HNRNPK_rpt1; first type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
    cd22433
    Location:144213
    KH-I_HNRNPK_rpt2; second type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
    cd22434
    Location:387460
    KH-I_HNRNPK_rpt3; third type I K homology (KH) RNA-binding domain found in heterogeneous nuclear ribonucleoprotein K (hnRNP K) and similar proteins
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