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Gene

GLI1

GLI family zinc finger 1

Summary

Cytogenetic location
12q13.3
Coordinates
Chromosome 12: 57,459,785–57,472,268 (GRCh38)
Exons
12 exons across 12.5 kb
Protein
1,106 amino acids
Previous symbols
GLI
MANE Select transcript
ENST00000228682.7NM_005269.3
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 GLI1 yet. The test sequences your whole genome, so your data includes it all the same.

How GLI1 is laid out

  • Coding sequence
  • Untranslated region
  • Intron
  • Direction of transcription
  • Known disease-causing sites
Chromosome 12, with a bracket where GLI1 sits. GLI1 and 41 genes near it on chromosome 12, from 56,966,027 to 57,966,026.Chromosome 1212q13.3p13.33p13.32p13.31p13.2p13.1p12.3p12.2p12.1p11.23p11.22p11.21p11.1q11q12q13.11q13.12q13.13q13.2q13.3q14.1q14.2q14.3q15q21.1q21.2q21.31q21.32q21.33q22q23.1q23.2q23.3q24.11q24.12q24.13q24.21q24.22q24.23q24.31q24.32q24.3357 Mb57.2 Mb57.4 Mb57.6 Mb57.8 MbACKR5: 56,994,487–56,998,889, forward strandACKR5ZBTB39: 56,998,836–57,006,560, reverse strandZBTB39TAC3: 57,010,000–57,028,883, reverse strandTAC3MYO1A: 57,025,262–57,051,198, reverse strandMYO1ANEMP1: 57,055,641–57,088,063, reverse strandNEMP1NAB2: 57,088,883–57,095,476, forward strandNAB2STAT6: 57,095,403–57,132,139, reverse strandSTAT6LRP1: 57,128,476–57,213,394, forward strandLRP1NXPH4: 57,216,780–57,226,449, forward strandSHMT2: 57,226,554–57,234,935, forward strandCOXFA4L2: 57,234,541–57,242,750, reverse strandCOXFA4L2STAC3: 57,243,453–57,251,195, reverse strandSTAC3: 57,249,609–57,296,484, reverse strandR3HDM2: 57,253,762–57,431,051, reverse strandR3HDM2INHBC: 57,434,700–57,452,067, forward strandINHBCINHBE: 57,452,323–57,459,280, forward strandINHBEGLI1: 57,459,785–57,472,268, forward strandGLI1ARHGAP9: 57,472,260–57,488,831, reverse strandARHGAP9MARS1: 57,475,445–57,517,702, forward strandMARS1DDIT3: 57,516,584–57,523,630, reverse strandDDIT3: 57,517,712–57,520,480, reverse strandMBD6: 57,520,710–57,530,614, forward strandDCTN2: 57,529,567–57,547,256, reverse strandKIF5A: 57,546,026–57,586,633, forward strandKIF5APIP4K2C: 57,591,161–57,603,418, forward strandPIP4K2CDTX3: 57,604,484–57,609,804, forward strandDTX3ARHGEF25: 57,610,111–57,617,245, forward strandARHGEF25: 57,615,280–57,626,125, forward strandB4GALNT1: 57,623,409–57,633,242, reverse strandOS9: 57,693,841–57,728,342, forward strandOS9AGAP2: 57,723,761–57,742,209, reverse strandAGAP2TSPAN31: 57,738,013–57,751,383, forward strandTSPAN31CDK4: 57,746,043–57,756,013, reverse strandCDK4MARCHF9: 57,754,940–57,760,411, forward strandCYP27B1: 57,762,334–57,768,986, reverse strandMETTL1: 57,768,471–57,772,131, reverse strandEEF1AKMT3: 57,771,492–57,782,544, forward strand: 57,772,660–57,797,554, forward strandTSFM: 57,782,731–57,828,655, forward strandTSFMAVIL: 57,797,376–57,818,734, reverse strandAVILCTDSP2: 57,819,925–57,846,976, reverse strandCTDSP2ATP23: 57,906,039–57,959,148, forward strandATP23Diagram of GLI1: 12 exons on the forward strand of chromosome 12Exon 4: 1 known disease-causing siteExon 8: 1 known disease-causing siteExon 9: 2 known disease-causing sitesExon 10: 1 known disease-causing siteExon 12: 2 known disease-causing sitesExon 1: 57,459,785–57,460,201, 417 basesExon 2: 57,463,665–57,463,791, 127 basesExon 3: 57,463,999–57,464,091, 93 basesExon 4: 57,464,673–57,464,868, 196 basesExon 5: 57,465,111–57,465,255, 145 basesExon 6: 57,465,607–57,465,696, 90 basesExon 7: 57,465,788–57,465,925, 138 basesExon 8: 57,466,240–57,466,389, 150 basesExon 9: 57,467,333–57,467,497, 165 basesExon 10: 57,467,994–57,468,224, 231 basesExon 11: 57,469,431–57,469,698, 268 basesExon 12: 57,470,317–57,472,268, 1,952 bases1234567891011125′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 12.5 kb; 3,321 of those bases code for the protein.

How a genome test reads GLI1

7

positions in GLI1 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 12.5 kb of GLI1, introns included, not only the 4 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.). GLI1 gene: GLI family zinc finger 1. Retrieved 17 October 2026, from https://dantelabs.com/genes/gli1

Vancouver

Dante Labs. GLI1 gene: GLI family zinc finger 1 [Internet]. [cited 17 October 2026]. Available from: https://dantelabs.com/genes/gli1

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