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Gene

PCDHA9

protocadherin alpha 9

Summary

Cytogenetic location
5q31.3
Coordinates
Chromosome 5: 140,848,382–141,012,347 (GRCh38)
Exons
4 exons across 164 kb
Protein
950 amino acids
Also known as
KIAA0345, PCDH-ALPHA9
MANE Select transcript
ENST00000532602.2NM_031857.2
Locus type
complex locus constituent
  • Very high
  • Confident
  • Low
  • Very low

Reference genomeGRCh38

Positions on gene and variant pages follow this choice, in this browser.

Curated reports relevant to this gene

No Genome Test report reads PCDHA9 yet. The test sequences your whole genome, so your data includes it all the same.

How PCDHA9 is laid out

  • Coding sequence
  • Untranslated region
  • Intron
  • Direction of transcription
  • Stretches short reads find hard
Chromosome 5, with a bracket where PCDHA9 sits. PCDHA9 and 67 genes near it on chromosome 5, from 140,430,365 to 141,430,364.Chromosome 55q31.3p15.33p15.32p15.31p15.2p15.1p14.3p14.2p14.1p13.3p13.2p13.1p12p11q11.1q11.2q12.1q12.2q12.3q13.1q13.2q13.3q14.1q14.2q14.3q15q21.1q21.2q21.3q22.1q22.2q22.3q23.1q23.2q23.3q31.1q31.2q31.3q32q33.1q33.2q33.3q34q35.1q35.2q35.3140.6 Mb140.8 Mb141 Mb141.2 Mb141.4 MbANKHD1: 140,401,660–140,541,168, forward strandANKHD1-EIF4EBP3: 140,401,908–140,549,569, forward strandSRA1: 140,536,450–140,557,920, reverse strandEIF4EBP3: 140,547,616–140,551,708, forward strandEIF4EBP3APBB3: 140,558,268–140,564,781, reverse strandAPBB3SLC35A4: 140,564,440–140,569,215, forward strandSLC35A4SURMIR: 140,564,440–140,569,215, forward strandSURMIRCD14: 140,630,402–140,633,711, reverse strandNDUFA2: 140,638,740–140,647,823, reverse strandTMCO6: 140,639,396–140,647,730, forward strandIK: 140,647,058–140,662,480, forward strandIKWDR55: 140,664,476–140,674,124, forward strandDND1: 140,670,794–140,673,576, reverse strandDND1HARS1: 140,673,035–140,691,537, reverse strandHARS1HARS2: 140,691,422–140,699,315, forward strandHARS2ZMAT2: 140,698,680–140,707,729, forward strandZMAT2PCDHA1: 140,786,136–141,012,351, forward strandPCDHA2: 140,794,845–141,012,351, forward strandPCDHA3: 140,801,018–141,012,351, forward strandPCDHA4: 140,807,037–141,012,347, forward strandPCDHA5: 140,821,599–141,012,347, forward strandPCDHA6: 140,827,958–141,012,351, forward strandPCDHA7: 140,834,231–141,012,351, forward strandPCDHA7PCDHA8: 140,841,185–141,012,351, forward strandPCDHA8PCDHA9: 140,848,382–141,012,347, forward strandPCDHA9PCDHA10: 140,855,883–141,012,351, forward strandPCDHA10PCDHA11: 140,868,183–141,012,351, forward strandPCDHA12: 140,875,256–141,012,351, forward strandPCDHA13: 140,882,079–141,012,347, forward strandPCDHAC1: 140,926,299–141,012,351, forward strandPCDHAC2: 140,966,466–141,012,351, forward strandPCDHB1: 141,051,374–141,059,346, forward strandPCDHB1PCDHB2: 141,094,597–141,098,703, forward strandPCDHB2PCDHB3: 141,100,473–141,103,827, forward strandPCDHB3PCDHB4: 141,121,818–141,125,623, forward strandPCDHB4PCDHB5: 141,135,206–141,138,615, forward strandPCDHB5PCDHB6: 141,150,057–141,153,287, forward strandPCDHB7: 141,172,644–141,176,383, forward strandPCDHB7PCDHB8: 141,177,790–141,182,369, forward strandPCDHB8PCDHB16: 141,182,387–141,186,226, forward strandPCDHB9: 141,187,127–141,191,541, forward strandPCDHB10: 141,192,353–141,195,647, forward strandPCDHB11: 141,199,610–141,203,779, forward strandPCDHB12: 141,208,697–141,212,571, forward strandPCDHB12PCDHB13: 141,213,919–141,218,979, forward strandPCDHB14: 141,223,343–141,227,759, forward strand: 141,223,372–141,245,861, forward strandPCDHB15: 141,245,395–141,249,365, forward strandPCDHB15TAF7: 141,259,884–141,320,784, reverse strandTAF7SLC25A2: 141,302,635–141,304,049, reverse strandSLC25A2PCDHGA1: 141,330,495–141,512,977, forward strandPCDHGA1PCDHGA2: 141,338,754–141,512,977, forward strandPCDHGA2PCDHGA3: 141,343,819–141,512,977, forward strandPCDHGA3PCDHGB1: 141,350,083–141,512,977, forward strandPCDHGB1PCDHGA4: 141,355,004–141,512,977, forward strandPCDHGB2: 141,359,971–141,512,977, forward strandPCDHGA5: 141,364,162–141,512,977, forward strandPCDHGB3: 141,370,237–141,512,977, forward strandPCDHGA6: 141,373,878–141,512,977, forward strandPCDHGA7: 141,382,702–141,512,977, forward strandPCDHGB4: 141,387,698–141,512,977, forward strandPCDHGA8: 141,390,157–141,512,977, forward strandPCDHGB5: 141,397,942–141,512,977, forward strandPCDHGA9: 141,402,765–141,512,977, forward strandPCDHGB6: 141,407,989–141,512,977, forward strandPCDHGA10: 141,412,981–141,512,977, forward strandPCDHGB7: 141,417,642–141,512,977, forward strandPCDHGA11: 141,421,021–141,512,977, forward strandDiagram of PCDHA9: 4 exons on the forward strand of chromosome 5Exon 1: 140,848,382–140,850,889, 2,508 basesExon 2: 140,978,949–140,979,007, 59 basesExon 3: 140,982,475–140,982,563, 89 basesExon 4: 141,009,627–141,012,347, 2,721 bases12345′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 5.4 kb of the gene's 164 kb; 2,853 of those bases code for the protein.

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.

Cite this page

APA

Dante Labs. (n.d.). PCDHA9 gene: protocadherin alpha 9. Retrieved 17 October 2026, from https://dantelabs.com/genes/pcdha9

Vancouver

Dante Labs. PCDHA9 gene: protocadherin alpha 9 [Internet]. [cited 17 October 2026]. Available from: https://dantelabs.com/genes/pcdha9

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