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Gene

PIP5K1C

phosphatidylinositol-4-phosphate 5-kinase type 1 gamma

Summary

Cytogenetic location
19p13.3
Coordinates
Chromosome 19: 3,630,183–3,700,468 (GRCh38)
Exons
18 exons across 70.3 kb
Protein
668 amino acids
Also known as
PIP5Kgamma, KIAA0589, LCCS3
MANE Select transcript
ENST00000335312.8NM_012398.3
Locus type
Protein-coding
  • Very high
  • Confident
  • Low
  • Very low

Curated reports relevant to this gene

No Genome Test report reads PIP5K1C yet. The test sequences your whole genome, so your data includes it all the same.

How PIP5K1C is laid out

  • Coding sequence
  • Untranslated region
  • Intron
  • Direction of transcription
  • Known disease-causing sites
  • Stretches short reads find hard
Chromosome 19, with a bracket where PIP5K1C sits. PIP5K1C and 28 genes near it on chromosome 19, from 3,165,326 to 4,165,325.Chromosome 1919p13.3p13.3p13.2p13.13p13.12p13.11p12p11q11q12q13.11q13.12q13.13q13.2q13.31q13.32q13.33q13.41q13.42q13.433.2 Mb3.4 Mb3.6 Mb3.8 Mb4 MbS1PR4: 3,172,346–3,180,332, forward strandS1PR4NCLN: 3,185,563–3,209,575, forward strandNCLNCELF5: 3,224,636–3,297,076, forward strandCELF5NFIC: 3,314,403–3,469,217, forward strandNFICSMIM24: 3,473,986–3,480,557, reverse strandSMIM24SMIM44: 3,482,110–3,483,441, reverse strandSMIM44DOHH: 3,490,821–3,507,203, reverse strandDOHHFZR1: 3,506,270–3,538,334, forward strandFZR1MFSD12: 3,538,261–3,574,290, reverse strandMFSD12TEKTIP1: 3,539,169–3,544,030, forward strandHMG20B: 3,572,692–3,579,088, forward strandHMG20BGIPC3: 3,585,474–3,593,541, forward strandGIPC3TBXA2R: 3,594,506–3,606,900, reverse strandTBXA2RCACTIN: 3,610,643–3,626,833, reverse strandCACTINPIP5K1C: 3,630,183–3,700,468, reverse strandPIP5K1CTJP3: 3,708,310–3,750,813, forward strandTJP3APBA3: 3,750,772–3,761,700, reverse strandAPBA3MRPL54: 3,761,841–3,769,033, forward strandMRPL54RAX2: 3,769,089–3,772,238, reverse strandRAX2MATK: 3,777,969–3,802,129, reverse strandMATKZFR2: 3,804,024–3,869,055, reverse strandZFR2ATCAY: 3,879,864–3,928,082, forward strandATCAYNMRK2: 3,932,994–3,943,081, forward strandNMRK2DAPK3: 3,958,453–3,971,130, reverse strandDAPK3EEF2: 3,976,044–3,985,479, reverse strandEEF2PIAS4: 4,007,690–4,039,386, forward strandPIAS4ZBTB7A: 4,041,419–4,067,636, reverse strandZBTB7AMAP2K2: 4,090,316–4,124,238, reverse strandMAP2K2CREB3L3: 4,152,949–4,173,057, forward strandCREB3L3Diagram of PIP5K1C: 18 exons on the reverse strand of chromosome 19Exon 7: 1 known disease-causing siteExon 18: 3,630,183–3,633,169, 2,987 basesExon 17: 3,633,437–3,633,520, 84 basesExon 16: 3,638,884–3,639,016, 133 basesExon 15: 3,641,705–3,641,809, 105 basesExon 14: 3,642,907–3,642,939, 33 basesExon 13: 3,643,243–3,643,381, 139 basesExon 12: 3,644,087–3,644,251, 165 basesExon 11: 3,645,974–3,646,058, 85 basesExon 10: 3,647,338–3,647,386, 49 basesExon 9: 3,648,625–3,648,708, 84 basesExon 8: 3,651,826–3,652,031, 206 basesExon 7: 3,653,290–3,653,589, 300 basesExon 6: 3,656,405–3,656,557, 153 basesExon 5: 3,660,966–3,661,083, 118 basesExon 4: 3,661,871–3,662,001, 131 basesExon 3: 3,664,822–3,664,914, 93 basesExon 2: 3,667,322–3,667,353, 32 basesExon 1: 3,700,297–3,700,468, 172 bases181510515′3′

Exons of the gene's MANE Select transcript (release v1.5), from NCBI and EMBL-EBI, on the GRCh38 reference genome.

Chromosome bands from UCSC's GRCh38 ideogram (2022-10-29).

Nearby genes from Ensembl release 116, on GRCh38.

Exons make up 5.1 kb of the gene's 70.3 kb; 2,007 of those bases code for the protein.

Sequencing PIP5K1C

1

position in PIP5K1C where ClinVar classes a change as pathogenic or likely pathogenic

None of them falls in a region short reads find hard.

A whole genome covers all 70.3 kb of PIP5K1C, introns included, not only the 5.1 kb of exons.

Traits linked to PIP5K1C

The Human Phenotype Ontology lists these as features of the rare conditions PIP5K1C can cause. Each trait's page lists the other genes linked to it.

External links

Where this comes from

  • HGNC: the gene's symbol, name, other symbols and location.
  • MANE Select v1.5, from NCBI and EMBL-EBI: the transcript, its exons and coding sequence.
  • ClinVar and the GIAB stratifications: known disease-causing sites, and the regions short reads find hard.
  • The Human Phenotype Ontology, release 2026-09-01: the traits linked to the gene. Find out more at hpo.jax.org.
  • Data release 2026.10.16-c6eea6bf.

Cite this page

APA

Dante Labs. (n.d.). PIP5K1C gene: phosphatidylinositol-4-phosphate 5-kinase type 1 gamma. Retrieved 17 October 2026, from https://dantelabs.com/genes/pip5k1c

Vancouver

Dante Labs. PIP5K1C gene: phosphatidylinositol-4-phosphate 5-kinase type 1 gamma [Internet]. [cited 17 October 2026]. Available from: https://dantelabs.com/genes/pip5k1c

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