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    Pde1c phosphodiesterase 1C [ Mus musculus (house mouse) ]

    Gene ID: 18575, updated on 27-Nov-2024

    Summary

    Official Symbol
    Pde1cprovided by MGI
    Official Full Name
    phosphodiesterase 1Cprovided by MGI
    Primary source
    MGI:MGI:108413
    See related
    Ensembl:ENSMUSG00000004347 AllianceGenome:MGI:108413
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Summary
    Enables 3',5'-cyclic-AMP phosphodiesterase activity and 3',5'-cyclic-GMP phosphodiesterase activity. Acts upstream of or within sensory perception of smell. Located in cilium and lysosome. Is expressed in several structures, including alimentary system; central nervous system; genitourinary system; limb; and sensory organ. Human ortholog(s) of this gene implicated in autosomal dominant nonsyndromic deafness 74. Orthologous to human PDE1C (phosphodiesterase 1C). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in testis adult (RPKM 4.7), cerebellum adult (RPKM 3.2) and 8 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Pde1c in Genome Data Viewer
    Location:
    6 B3; 6 27.65 cM
    Exon count:
    29
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (56046783..56629590, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (56069798..56652510, complement)

    Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_15984 Neighboring gene protein phosphatase 1, regulatory subunit 17 Neighboring gene STARR-seq mESC enhancer starr_15985 Neighboring gene ribosomal protein L17 pseudogene Neighboring gene STARR-seq mESC enhancer starr_15986 Neighboring gene STARR-positive B cell enhancer mm9_chr6:56183581-56183882 Neighboring gene STARR-seq mESC enhancer starr_15987 Neighboring gene STARR-seq mESC enhancer starr_15988 Neighboring gene predicted gene, 34753 Neighboring gene STARR-seq mESC enhancer starr_15989 Neighboring gene predicted gene, 24709 Neighboring gene predicted gene, 22493 Neighboring gene CapStarr-seq enhancer MGSCv37_chr6:56654682-56654884 Neighboring gene STARR-seq mESC enhancer starr_15990 Neighboring gene STARR-positive B cell enhancer ABC_E679 Neighboring gene LSM5 homolog, U6 small nuclear RNA and mRNA degradation associated Neighboring gene AVL9 cell migration associated

    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

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (3) 
    • Targeted (2)  1 citation

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Component Evidence Code Pubs
    located_in cilium IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in lysosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in neuronal cell body IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in neuronal cell body ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    dual specificity calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1C
    Names
    3',5'-cyclic-AMP phosphodiesterase
    3',5'-cyclic-GMP phosphodiesterase
    calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1C
    cam-PDE 1C
    dual specificity Calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1C
    NP_001020739.1
    NP_001153424.1
    NP_001153425.1
    NP_001153427.1
    NP_001153428.1
    NP_001153429.1
    NP_001153432.1
    NP_001342404.1
    NP_001397182.1
    NP_001397183.1
    NP_001397184.1
    NP_001397185.1
    NP_001397186.1
    NP_001397187.1
    NP_035184.1
    XP_006505793.1
    XP_006505797.1
    XP_006505798.3

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001025568.3NP_001020739.1  dual specificity calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1C isoform b

      See identical proteins and their annotated locations for NP_001020739.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) represents the longest transcript. Variants 2 and 8 encode the same isoform (b).
      Source sequence(s)
      AC079274, AC079956
      Consensus CDS
      CCDS51785.1
      UniProtKB/TrEMBL
      Q3USZ6, Q5D0E7
      Related
      ENSMUSP00000131350.2, ENSMUST00000166102.8
      Conserved Domains (3) summary
      PTZ00121
      Location:543628
      PTZ00121; MAEBL; Provisional
      pfam00233
      Location:227455
      PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
      pfam08499
      Location:86142
      PDEase_I_N; 3'5'-cyclic nucleotide phosphodiesterase N-terminal
    2. NM_001159952.2NP_001153424.1  dual specificity calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1C isoform c

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an in-frame exon in the 5' coding region, compared to variant 2. This results in a shorter protein (isoform c), compared to isoform b.
      Source sequence(s)
      AC079274, AC079956
      Consensus CDS
      CCDS51783.1
      UniProtKB/TrEMBL
      E9Q7V6, Q3USZ6
      Related
      ENSMUSP00000130139.2, ENSMUST00000164037.3
      Conserved Domains (2) summary
      pfam00233
      Location:218446
      PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
      pfam08499
      Location:77133
      PDEase_I_N; 3'5'-cyclic nucleotide phosphodiesterase N-terminal
    3. NM_001159953.2NP_001153425.1  dual specificity calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1C isoform d

      See identical proteins and their annotated locations for NP_001153425.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) uses an alternate exon structure in the 3' coding region compared to variant 2. It encodes isoform d, which is longer and has a distinct C-terminus, compared to isoform b.
      Source sequence(s)
      AC079274, AC079365, AC079956
      Consensus CDS
      CCDS51784.1
      UniProtKB/Swiss-Prot
      Q62045, Q64338, Q8BSV6
      UniProtKB/TrEMBL
      Q3USZ6
      Related
      ENSMUSP00000046601.8, ENSMUST00000044505.14
      Conserved Domains (2) summary
      pfam00233
      Location:227455
      PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
      pfam08499
      Location:86142
      PDEase_I_N; 3'5'-cyclic nucleotide phosphodiesterase N-terminal
    4. NM_001159955.2NP_001153427.1  dual specificity calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1C isoform a

      See identical proteins and their annotated locations for NP_001153427.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (7) differs in the 5' UTR and uses an alternate 3' exon structure compared to variant 2. Variants 1, 7 and 9 encode the same isoform (a), which is longer and has a distinct C-terminus, compared to isoform b.
      Source sequence(s)
      AC044804, AC079274, AC079365, AC079956
      Consensus CDS
      CCDS20170.1
      UniProtKB/TrEMBL
      Q3USZ6
      Related
      ENSMUSP00000128364.2, ENSMUST00000168944.8
      Conserved Domains (3) summary
      pfam00233
      Location:227445
      PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
      pfam08499
      Location:86142
      PDEase_I_N; 3'5'-cyclic nucleotide phosphodiesterase N-terminal
      cl26511
      Location:543633
      Neuromodulin_N; Gap junction protein N-terminal region
    5. NM_001159956.2NP_001153428.1  dual specificity calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1C isoform f

      See identical proteins and their annotated locations for NP_001153428.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) differs in the 5' UTR, 5' coding region, and 3' coding region, compared to variant 2. This results in distinct N- and C-termini and a shorter protein (isoform f), compared to isoform b.
      Source sequence(s)
      AC044804, AC079365, AC079956
      Consensus CDS
      CCDS51786.1
      UniProtKB/TrEMBL
      Q3USZ6, Q9D5W0
      Related
      ENSMUSP00000133170.2, ENSMUST00000170774.8
      Conserved Domains (2) summary
      pfam00233
      Location:190418
      PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
      pfam08499
      Location:49105
      PDEase_I_N; 3'5'-cyclic nucleotide phosphodiesterase N-terminal
    6. NM_001159957.2NP_001153429.1  dual specificity calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1C isoform e

      See identical proteins and their annotated locations for NP_001153429.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) differs in the 5' UTR and 5' coding region but maintains the reading frame, compared to variant 2. This results in a distinct N-terminus and shorter protein (isoform e), compared to isoform b.
      Source sequence(s)
      AC044804, AC079274, AC079956
      Consensus CDS
      CCDS51787.1
      UniProtKB/TrEMBL
      Q3USZ6, Q8CDV2
      Related
      ENSMUSP00000131892.2, ENSMUST00000166890.8
      Conserved Domains (2) summary
      pfam00233
      Location:199427
      PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
      pfam08499
      Location:58114
      PDEase_I_N; 3'5'-cyclic nucleotide phosphodiesterase N-terminal
    7. NM_001159960.2NP_001153432.1  dual specificity calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1C isoform b

      See identical proteins and their annotated locations for NP_001153432.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (8) differs in the 5' UTR, compared to variant 2. Variants 2 and 8 encode the same isoform (b).
      Source sequence(s)
      AC044804, AC079274, AC079956
      Consensus CDS
      CCDS51785.1
      UniProtKB/TrEMBL
      Q3USZ6, Q5D0E7
      Related
      ENSMUSP00000129185.2, ENSMUST00000164752.8
      Conserved Domains (3) summary
      PTZ00121
      Location:543628
      PTZ00121; MAEBL; Provisional
      pfam00233
      Location:227455
      PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
      pfam08499
      Location:86142
      PDEase_I_N; 3'5'-cyclic nucleotide phosphodiesterase N-terminal
    8. NM_001355475.2NP_001342404.1  dual specificity calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1C isoform a

      Status: VALIDATED

      Description
      Transcript Variant: This variant (9) uses an alternate 3' exon structure compared to variant 2. Variants 1, 7 and 9 encode the same isoform (a), which is longer and has a distinct C-terminus, compared to isoform b.
      Source sequence(s)
      AC079274, AC079365, AC079956
      Consensus CDS
      CCDS20170.1
      UniProtKB/TrEMBL
      Q3USZ6
      Conserved Domains (3) summary
      pfam00233
      Location:227445
      PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
      pfam08499
      Location:86142
      PDEase_I_N; 3'5'-cyclic nucleotide phosphodiesterase N-terminal
      cl26511
      Location:543633
      Neuromodulin_N; Gap junction protein N-terminal region
    9. NM_001410253.1NP_001397182.1  dual specificity calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1C isoform b

      Status: VALIDATED

      Source sequence(s)
      AC079274, AC079956
      UniProtKB/TrEMBL
      Q5D0E7
    10. NM_001410254.1NP_001397183.1  dual specificity calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1C isoform b

      Status: VALIDATED

      Source sequence(s)
      AC044804, AC079274, AC079956
      UniProtKB/TrEMBL
      Q5D0E7
    11. NM_001410255.1NP_001397184.1  dual specificity calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1C isoform g

      Status: VALIDATED

      Source sequence(s)
      AC044804, AC079956, AC122847
    12. NM_001410256.1NP_001397185.1  dual specificity calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1C isoform h

      Status: VALIDATED

      Source sequence(s)
      AC044804, AC079365, AC079956
    13. NM_001410257.1NP_001397186.1  dual specificity calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1C isoform i

      Status: VALIDATED

      Source sequence(s)
      AC044804, AC079365, AC079956
    14. NM_001410258.1NP_001397187.1  dual specificity calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1C isoform j

      Status: VALIDATED

      Source sequence(s)
      AC044804, AC079956
    15. NM_011054.5NP_035184.1  dual specificity calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1C isoform a

      See identical proteins and their annotated locations for NP_035184.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) differs in the 5' UTR and uses an alternate 3' exon structure compared to variant 2. Variants 1, 7 and 9 encode the same isoform (a), which is longer and has a distinct C-terminus, compared to isoform b.
      Source sequence(s)
      AC079274, AC079365, AC079956
      Consensus CDS
      CCDS20170.1
      UniProtKB/TrEMBL
      Q3USZ6
      Related
      ENSMUSP00000109966.3, ENSMUST00000114327.9
      Conserved Domains (3) summary
      pfam00233
      Location:227445
      PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
      pfam08499
      Location:86142
      PDEase_I_N; 3'5'-cyclic nucleotide phosphodiesterase N-terminal
      cl26511
      Location:543633
      Neuromodulin_N; Gap junction protein N-terminal region

    RNA

    1. NR_176965.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC044804, AC079274, AC079365, AC079956
    2. NR_176966.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC044804, AC079365, AC079956
    3. NR_176967.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC044804, AC079365, AC079956
    4. NR_176968.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC079274, AC079365, AC079956

    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_000072.7 Reference GRCm39 C57BL/6J

      Range
      56046783..56629590 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006505730.5XP_006505793.1  dual specificity calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1C isoform X1

      UniProtKB/TrEMBL
      A0A5F8MPG4
      Related
      ENSMUSP00000158960.2, ENSMUST00000239143.2
      Conserved Domains (3) summary
      PTZ00121
      Location:698788
      PTZ00121; MAEBL; Provisional
      pfam00233
      Location:382610
      PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
      pfam08499
      Location:241297
      PDEase_I_N; 3'5'-cyclic nucleotide phosphodiesterase N-terminal
    2. XM_006505734.2XP_006505797.1  dual specificity calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1C isoform X3

      UniProtKB/TrEMBL
      A0A0N4SWG4
      Related
      ENSMUSP00000145508.2, ENSMUST00000203372.3
      Conserved Domains (3) summary
      PTZ00121
      Location:603693
      PTZ00121; MAEBL; Provisional
      pfam00233
      Location:287515
      PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
      pfam08499
      Location:146202
      PDEase_I_N; 3'5'-cyclic nucleotide phosphodiesterase N-terminal
    3. XM_006505735.3XP_006505798.3  dual specificity calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1C isoform X4

      UniProtKB/TrEMBL
      Q3USZ6
      Conserved Domains (3) summary
      PTZ00121
      Location:537627
      PTZ00121; MAEBL; Provisional
      pfam00233
      Location:221449
      PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
      pfam08499
      Location:80136
      PDEase_I_N; 3'5'-cyclic nucleotide phosphodiesterase N-terminal

    RNA

    1. XR_003956167.1 RNA Sequence

    2. XR_003956169.1 RNA Sequence

    3. XR_003956168.1 RNA Sequence

    4. XR_003956172.1 RNA Sequence

    5. XR_003956171.2 RNA Sequence