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Gene

CLSTN3

calsyntenin 3

Summary

Cytogenetic location
12p13.31
Coordinates
Chromosome 12: 7,130,371–7,158,945 (GRCh38)
Exons
18 exons across 28.6 kb
Protein
956 amino acids
Also known as
CSTN3, KIAA0726, CDHR14
MANE Select transcript
ENST00000266546.11NM_014718.4
Locus type
gene with protein product
  • 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 CLSTN3 yet. The test sequences your whole genome, so your data includes it all the same.

How CLSTN3 is laid out

  • Coding sequence
  • Untranslated region
  • Intron
  • Direction of transcription
Chromosome 12, with a bracket where CLSTN3 sits. CLSTN3 and 34 genes near it on chromosome 12, from 6,644,658 to 7,644,657.Chromosome 1212p13.31p13.33p13.32p13.31p13.2p13.1p12.3p12.2p12.1p11.23p11.22p11.21p11.1q11q12q13.11q13.12q13.13q13.2q13.3q14.1q14.2q14.3q15q21.1q21.2q21.31q21.32q21.33q22q23.1q23.2q23.3q24.11q24.12q24.13q24.21q24.22q24.23q24.31q24.32q24.336.8 Mb7 Mb7.2 Mb7.4 Mb7.6 MbACRBP: 6,638,075–6,647,441, reverse strandACRBPING4: 6,650,282–6,663,180, reverse strandING4ZNF384: 6,665,037–6,689,572, reverse strandZNF384PIANP: 6,693,791–6,700,859, reverse strandPIANPCOPS7A: 6,724,014–6,732,462, forward strandCOPS7AMLF2: 6,747,986–6,768,932, reverse strandMLF2PTMS: 6,765,516–6,770,952, forward strandPTMSLAG3: 6,772,360–6,778,455, forward strandLAG3CD4: 6,786,858–6,820,807, forward strandCD4GPR162: 6,821,624–6,829,972, forward strandP3H3: 6,828,220–6,839,867, forward strandGNB3: 6,839,954–6,847,393, forward strandCDCA3: 6,844,723–6,852,353, reverse strandUSP5: 6,852,098–6,866,632, forward strandUSP5TPI1: 6,867,119–6,878,513, forward strandTPI1SPSB2: 6,870,934–6,889,358, reverse strandSPSB2LRRC23: 6,873,455–6,914,243, forward strandLRRC23ENO2: 6,913,745–6,923,970, forward strandENO2ATN1: 6,924,454–6,942,322, forward strandATN1C12orf57: 6,942,919–6,946,009, forward strandRNU7-1: 6,943,816–6,943,878, forward strandPTPN6: 6,946,417–6,961,316, forward strandPHB2: 6,965,327–6,970,841, reverse strandEMG1: 6,970,765–6,979,939, forward strandEMG1: 6,970,921–6,997,428, forward strandLPCAT3: 6,972,027–7,018,779, reverse strandLPCAT3C1S: 6,988,259–7,071,281, forward strandC1SC1R: 7,080,213–7,092,873, reverse strandC1RC1RL: 7,089,587–7,109,245, reverse strandC1RLRBP5: 7,115,736–7,128,891, reverse strandRBP5CLSTN3: 7,130,371–7,158,945, forward strandCLSTN3PEX5: 7,188,653–7,218,574, forward strandPEX5ACSM4: 7,304,072–7,328,719, forward strandACSM4CD163L1: 7,346,685–7,479,897, reverse strandCD163L1CD163: 7,469,417–7,503,911, reverse strandCD163Diagram of CLSTN3: 18 exons on the forward strand of chromosome 12Exon 1: 7,130,371–7,130,712, 342 basesExon 2: 7,133,024–7,133,146, 123 basesExon 3: 7,133,573–7,133,768, 196 basesExon 4: 7,135,327–7,135,535, 209 basesExon 5: 7,135,804–7,135,953, 150 basesExon 6: 7,136,206–7,136,391, 186 basesExon 7: 7,136,829–7,137,110, 282 basesExon 8: 7,137,955–7,138,067, 113 basesExon 9: 7,141,242–7,141,404, 163 basesExon 10: 7,142,086–7,142,139, 54 basesExon 11: 7,142,869–7,143,026, 158 basesExon 12: 7,143,163–7,143,311, 149 basesExon 13: 7,148,972–7,149,198, 227 basesExon 14: 7,149,523–7,149,693, 171 basesExon 15: 7,150,544–7,150,689, 146 basesExon 16: 7,150,928–7,151,063, 136 basesExon 17: 7,157,489–7,157,691, 203 basesExon 18: 7,157,941–7,158,945, 1,005 bases1246810121416185′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 4 kb of the gene's 28.6 kb; 2,871 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.). CLSTN3 gene: calsyntenin 3. Retrieved 16 October 2026, from https://dantelabs.com/genes/clstn3

Vancouver

Dante Labs. CLSTN3 gene: calsyntenin 3 [Internet]. [cited 16 October 2026]. Available from: https://dantelabs.com/genes/clstn3

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