SLC5A6
solute carrier family 5 member 6 | SMVT

Enables biotin transmembrane transporter activity; iodide transmembrane transporter activity; and pantothenate transmembrane transporter activity. Involved in iodide transmembrane transport; transport across blood-brain barrier; and vitamin transmembrane transport. Located in apical plasma membrane. [provided by Alliance of Genome Resources, Jul 2025]

Member of: DE-6 DE-6.11 Developmental clusters: GC1
Biological processes 46 terms
apical plasma membrane (GO:0016324)apical plasma membrane (GO:0016324)apical plasma membrane (GO:0016324)basal plasma membrane (GO:0009925)basolateral plasma membrane (GO:0016323)biotin import across plasma membrane (GO:1905135)biotin import across plasma membrane (GO:1905135)biotin metabolic process (GO:0006768)biotin transmembrane transporter activity (GO:0015225)biotin transmembrane transporter activity (GO:0015225)biotin transport (GO:0015878)biotin transport (GO:0015878)biotin transport (GO:0015878)biotin transport (GO:0015878)brush border membrane (GO:0031526)iodide transmembrane transport (GO:1904200)iodide transmembrane transporter activity (GO:0015111)membrane (GO:0016020)membrane (GO:0016020)monoatomic ion transmembrane transporter activity (GO:0015075)pantothenate transmembrane transport (GO:0015887)pantothenate transmembrane transport (GO:0015887)pantothenate transmembrane transport (GO:0015887)pantothenate transmembrane transport (GO:0015887)pantothenate transmembrane transporter activity (GO:0015233)pantothenate transmembrane transporter activity (GO:0015233)pantothenate transmembrane transporter activity (GO:0015233)pantothenate:sodium symporter activity (GO:0015498)plasma membrane (GO:0005886)plasma membrane (GO:0005886)plasma membrane (GO:0005886)plasma membrane (GO:0005886)plasma membrane (GO:0005886)protein binding (GO:0005515)sodium ion import across plasma membrane (GO:0098719)sodium ion transport (GO:0006814)sodium-dependent multivitamin transmembrane transporter activity (GO:0008523)sodium-dependent multivitamin transmembrane transporter activity (GO:0008523)sodium-dependent multivitamin transmembrane transporter activity (GO:0008523)transmembrane transport (GO:0055085)transmembrane transporter activity (GO:0022857)transport across blood-brain barrier (GO:0150104)transport across blood-brain barrier (GO:0150104)vitamin transmembrane transporter activity (GO:0090482)vitamin transmembrane transporter activity (GO:0090482)vitamin transmembrane transporter activity (GO:0090482)
Expression (TPM)
SLC5A6 — as a Regulated Gene

TFs regulating SLC5A6 0 TFs

Transcription factors with Perturb-seq knockdown data for SLC5A6. 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 = SLC5A6 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 SLC5A6

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of SLC5A6, 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
chr2:26,961,589–26,962,066 250.4 kb Distal (>10kb) Multiome 502
chr2:26,970,294–26,971,331 241.7 kb Distal (>10kb) Multiome 572
chr2:27,032,577–27,033,271 179.3 kb Distal (>10kb) Multiome 799
chr2:27,049,564–27,052,299 161.5 kb Distal (>10kb) Multiome 1295
chr2:27,071,223–27,072,896 140.5 kb Distal (>10kb) Multiome 864
chr2:27,081,006–27,081,641 130.9 kb Distal (>10kb) Multiome 758
chr2:27,085,591–27,087,452 125.6 kb Distal (>10kb) Multiome 970
chr2:27,123,498–27,124,089 88.5 kb Distal (>10kb) Multiome 553
chr2:27,133,917–27,135,216 77.6 kb Distal (>10kb) Multiome 815
chr2:27,211,255–27,212,840 140 bp At TSS Multiome 978
chr2:27,217,045–27,218,005 5.1 kb Proximal (<10kb) Multiome 771
chr2:27,250,040–27,250,883 38.1 kb Distal (>10kb) Multiome 559
chr2:27,262,260–27,263,337 50.7 kb Distal (>10kb) Multiome 376
chr2:27,264,406–27,265,326 52.9 kb Distal (>10kb) Multiome 696
chr2:27,306,488–27,307,261 94.4 kb Distal (>10kb) Multiome 115
chr2:27,322,773–27,323,423 110.8 kb Distal (>10kb) Multiome 906
chr2:27,356,094–27,357,596 144.7 kb Distal (>10kb) Multiome 1084
chr2:27,369,685–27,371,261 158.1 kb Distal (>10kb) Multiome 1096
chr2:27,380,026–27,381,202 168.5 kb Distal (>10kb) Multiome 821
chr2:27,408,972–27,410,056 197.4 kb Distal (>10kb) Multiome 989
chr2:27,428,202–27,429,633 216.4 kb Distal (>10kb) Multiome 1013
chr2:27,441,811–27,442,884 230.1 kb Distal (>10kb) Multiome 380
chr2:27,489,334–27,490,205 277.6 kb Distal (>10kb) Multiome 731
chr2:27,494,797–27,495,577 282.9 kb Distal (>10kb) Multiome 380

Genome Browser

Genomic view of the SLC5A6 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.

chr2:26,951,589 – 27,505,577
Proximal 1 kb Distal 10 kb Multiome HiCAR ATAC-seq RNA-seq
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