CHST6
carbohydrate sulfotransferase 6 | MCDC1

The protein encoded by this gene is an enzyme that catalyzes the transfer of a sulfate group to the GlcNAc residues of keratan. Keratan sulfate helps maintain corneal transparency. Defects in this gene are a cause of macular corneal dystrophy (MCD). [provided by RefSeq, Jan 2010]

Developmental clusters: GC4
Biological processes 23 terms
Golgi apparatus (GO:0005794)Golgi membrane (GO:0000139)Golgi membrane (GO:0000139)N-acetylglucosamine 6-O-sulfotransferase activity (GO:0001517)N-acetylglucosamine 6-O-sulfotransferase activity (GO:0001517)N-acetylglucosamine 6-O-sulfotransferase activity (GO:0001517)N-acetylglucosamine 6-O-sulfotransferase activity (GO:0001517)N-acetylglucosamine metabolic process (GO:0006044)N-acetylglucosamine metabolic process (GO:0006044)N-acetylglucosamine metabolic process (GO:0006044)N-acetylglucosamine metabolic process (GO:0006044)carbohydrate metabolic process (GO:0005975)keratan sulfate proteoglycan biosynthetic process (GO:0018146)keratan sulfate proteoglycan biosynthetic process (GO:0018146)keratan sulfate proteoglycan biosynthetic process (GO:0018146)keratan sulfotransferase activity (GO:0045130)keratan sulfotransferase activity (GO:0045130)keratan sulfotransferase activity (GO:0045130)sulfotransferase activity (GO:0008146)sulfur compound metabolic process (GO:0006790)sulfur compound metabolic process (GO:0006790)sulfur compound metabolic process (GO:0006790)trans-Golgi network (GO:0005802)
Expression (TPM)
CHST6 — as a Regulated Gene

TFs regulating CHST6 0 TFs

Transcription factors with Perturb-seq knockdown data for CHST6. The Binding column indicates whether any binding evidence exists for this TF–gene pair (ChIP-seq or motif footprint peaks). The Mean coef is the average Perturb-seq regression coefficient across active gRNAs (positive = CHST6 upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.

Data: Effect:
TF Mean coef Binding Outlier TF→Gene link

Elements linked to CHST6

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of CHST6, linked by TSS proximity or chromatin conformation (Multiome / HiCAR). Each element overlaps at least one TF ChIP-seq binding site — the TFs column shows how many distinct TFs bind that element.

Accessibility Element Dist. to TSS Link type TFs
chr16:75,250,387–75,252,500 243.7 kb Distal (>10kb) Multiome 811
chr16:75,265,114–75,266,526 229.4 kb Distal (>10kb) Multiome 798
chr16:75,432,825–75,434,426 62.0 kb Distal (>10kb) Multiome 1143
chr16:75,463,598–75,465,197 30.8 kb Distal (>10kb) Multiome 999
chr16:75,491,937–75,492,290 3.2 kb Proximal (<10kb) 225
chr16:75,494,705–75,495,929 at TSS At TSS Multiome 341
chr16:75,516,521–75,518,019 22.0 kb Distal (>10kb) Multiome 921
chr16:75,555,188–75,556,662 60.9 kb Distal (>10kb) Multiome 900
chr16:75,565,779–75,567,123 70.9 kb Distal (>10kb) Multiome 834
chr16:75,593,861–75,594,383 98.7 kb Distal (>10kb) Multiome 336
chr16:75,622,804–75,623,690 127.8 kb Distal (>10kb) Multiome 852
chr16:75,647,337–75,649,003 152.3 kb Distal (>10kb) Multiome 1002

Genome Browser

Genomic view of the CHST6 locus showing ATAC-seq accessibility and RNA-seq expression across the ESC → DE time course, together with TF binding peaks and element-to-TSS loop connections.

chr16:75,240,387 – 75,659,003
Proximal 1 kb Distal 10 kb Multiome HiCAR ATAC-seq RNA-seq
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