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Gene

CNTNAP2

contactin associated protein 2

Summary

Cytogenetic location
7q35-q36.1
Coordinates
Chromosome 7: 146,116,801–148,420,998 (GRCh38)
Exons
24 exons across 2,304.2 kb
Protein
1,331 amino acids
Also known as
Caspr2, KIAA0868, NRXN4
MANE Select transcript
ENST00000361727.8NM_014141.6
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 CNTNAP2 yet. The test sequences your whole genome, so your data includes it all the same.

How CNTNAP2 is laid out

  • Coding sequence
  • Untranslated region
  • Intron
  • Direction of transcription
  • Known disease-causing sites
  • Stretches short reads find hard
Chromosome 7, with a bracket where CNTNAP2 sits. CNTNAP2 and 48 genes near it on chromosome 7, from 143,812,603 to 150,725,196.Chromosome 77q35-q36.1p22.3p22.2p22.1p21.3p21.2p21.1p15.3p15.2p15.1p14.3p14.2p14.1p13p12.3p12.2p12.1p11.2p11.1q11.1q11.21q11.22q11.23q21.11q21.12q21.13q21.2q21.3q22.1q22.2q22.3q31.1q31.2q31.31q31.32q31.33q32.1q32.2q32.3q33q34q35q36.1q36.2q36.3144 Mb145 Mb146 Mb147 Mb148 Mb149 Mb150 MbTCAF1: 143,850,360–143,903,890, reverse strandTCAF1OR2F2: 143,935,233–143,936,186, forward strandOR2F2OR2F1: 143,954,844–143,997,312, forward strandOR6B1: 144,000,320–144,008,793, forward strandOR2A5: 144,048,948–144,058,845, forward strandOR2A25: 144,069,811–144,075,870, forward strandOR2A12: 144,086,278–144,098,953, forward strandOR2A2: 144,109,583–144,110,539, forward strandOR2A14: 144,123,176–144,131,188, forward strandARHGEF35: 144,182,888–144,195,879, reverse strandCTAGE4: 144,183,466–144,186,080, forward strandOR2A42: 144,228,244–144,239,605, reverse strandOR2A7: 144,254,975–144,264,792, reverse strandCTAGE8: 144,266,674–144,269,288, reverse strandOR2A1: 144,312,419–144,322,737, forward strandOR2A1ARHGEF5: 144,355,288–144,380,632, forward strandARHGEF5NOBOX: 144,396,894–144,403,795, reverse strandNOBOXTPK1: 144,451,941–144,836,419, reverse strandTPK1CNTNAP2: 146,116,801–148,420,998, forward strandCNTNAP2C7orf33: 148,590,766–148,615,860, forward strandC7orf33CUL1: 148,697,914–148,801,228, forward strandCUL1EZH2: 148,807,257–148,884,625, reverse strandEZH2PDIA4: 149,003,046–149,028,667, reverse strandPDIA4ZNF786: 149,069,491–149,090,784, reverse strandZNF786ZNF425: 149,102,784–149,126,348, reverse strandZNF425ZNF398: 149,126,416–149,183,042, forward strandZNF282: 149,195,502–149,226,243, forward strandZNF212: 149,239,651–149,255,956, forward strandZNF783: 149,262,022–149,297,303, forward strandZNF777: 149,429,030–149,461,067, reverse strandZNF777ZNF746: 149,472,696–149,497,831, reverse strandKRABD3: 149,714,781–149,734,934, forward strandKRABD3ZNF467: 149,764,175–149,776,519, reverse strandZNF467ZNF862: 149,838,375–149,867,479, forward strandZNF862ATP6V0E2: 149,872,961–149,927,449, forward strandACTR3C: 150,243,916–150,323,926, reverse strandACTR3CLRRC61: 150,323,263–150,338,156, forward strandLRRC61RARRES2: 150,338,314–150,342,144, reverse strandRARRES2REPIN1: 150,368,067–150,374,045, forward strandREPIN1ZNF775: 150,368,790–150,398,634, forward strand: 150,400,702–150,412,470, forward strandGIMAP8: 150,450,624–150,479,395, forward strandGIMAP7: 150,514,852–150,521,073, forward strandGIMAP4: 150,567,242–150,574,512, forward strandGIMAP6: 150,625,375–150,632,651, reverse strandGIMAP2: 150,685,647–150,694,763, forward strandGIMAP1: 150,716,606–150,724,284, forward strandGIMAP1-GIMAP5: 150,716,668–150,743,646, forward strandGIMAP5: 150,722,253–150,750,033, forward strandDiagram of CNTNAP2: 24 exons on the forward strand of chromosome 7Exon 1: 2 known disease-causing sitesExon 3: 4 known disease-causing sitesExon 4: 4 known disease-causing sitesExon 5: 7 known disease-causing sitesExon 6: 4 known disease-causing sitesExon 8: 2 known disease-causing sitesExon 9: 3 known disease-causing sitesExon 10: 1 known disease-causing siteExon 11: 4 known disease-causing sitesExon 12: 3 known disease-causing sitesExon 13: 3 known disease-causing sitesExon 14: 7 known disease-causing sitesExon 16: 3 known disease-causing sitesExon 17: 2 known disease-causing sitesExon 18: 4 known disease-causing sitesExon 19: 1 known disease-causing siteExon 20: 5 known disease-causing sitesExon 21: 1 known disease-causing siteExon 22: 5 known disease-causing sitesExon 24: 1 known disease-causing siteExon 1: 146,116,801–146,116,973, 173 basesExon 2: 146,774,271–146,774,381, 111 basesExon 3: 146,839,711–146,839,904, 194 basesExon 4: 147,043,907–147,044,054, 148 basesExon 5: 147,108,147–147,108,350, 204 basesExon 6: 147,120,979–147,121,163, 185 basesExon 7: 147,128,693–147,128,836, 144 basesExon 8: 147,132,245–147,132,509, 265 basesExon 9: 147,300,141–147,300,290, 150 basesExon 10: 147,395,609–147,395,780, 172 basesExon 11: 147,485,935–147,486,041, 107 basesExon 12: 147,562,138–147,562,257, 120 basesExon 13: 147,639,106–147,639,306, 201 basesExon 14: 147,903,565–147,903,721, 157 basesExon 15: 147,977,862–147,977,989, 128 basesExon 16: 148,118,118–148,118,288, 171 basesExon 17: 148,147,491–148,147,709, 219 basesExon 18: 148,172,242–148,172,478, 237 basesExon 19: 148,217,288–148,217,524, 237 basesExon 20: 148,229,646–148,229,779, 134 basesExon 21: 148,267,033–148,267,126, 94 basesExon 22: 148,383,649–148,383,888, 240 basesExon 23: 148,409,391–148,409,471, 81 basesExon 24: 148,415,417–148,420,998, 5,582 bases15101520245′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 9.5 kb of the gene's 2,304.2 kb; 3,996 of those bases code for the protein.

How a genome test reads CNTNAP2

79

positions in CNTNAP2 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 2,304.2 kb of CNTNAP2, introns included, not only the 9.5 kb of exons.

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.). CNTNAP2 gene: contactin associated protein 2. Retrieved 17 October 2026, from https://dantelabs.com/genes/cntnap2

Vancouver

Dante Labs. CNTNAP2 gene: contactin associated protein 2 [Internet]. [cited 17 October 2026]. Available from: https://dantelabs.com/genes/cntnap2

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