HOXD10

homeobox D10 | HOX4, HOX4D

This gene is a member of the Abd-B homeobox family and encodes a protein with a homeobox DNA-binding domain. It is included in a cluster of homeobox D genes located on chromosome 2. The encoded nuclear protein functions as a sequence-specific transcription factor that is expressed in the developing limb buds and is involved in differentiation and limb development. Mutations in this gene have been associated with Wilm's tumor and congenital vertical talus (also known as "rocker-bottom foot" deformity or congenital convex pes valgus) and/or a foot deformity resembling that seen in Charcot-Marie-Tooth disease. [provided by RefSeq, Jul 2008]

Biological processes 20 terms

DNA binding (GO:0003677)DNA-binding transcription activator activity, RNA polymerase II-specific (GO:0001228)DNA-binding transcription factor activity (GO:0003700)DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981)DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981)DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981)RNA polymerase II cis-regulatory region sequence-specific DNA binding (GO:0000978)RNA polymerase II transcription regulatory region sequence-specific DNA binding (GO:0000977)chromatin (GO:0000785)chromatin binding (GO:0003682)negative regulation of cell cycle (GO:0045786)nucleoplasm (GO:0005654)nucleus (GO:0005634)nucleus (GO:0005634)positive regulation of transcription by RNA polymerase II (GO:0045944)protein binding (GO:0005515)regulation of DNA-templated transcription (GO:0006355)regulation of transcription by RNA polymerase II (GO:0006357)sequence-specific double-stranded DNA binding (GO:1990837)sequence-specific double-stranded DNA binding (GO:1990837)

Expression (TPM)

TFs regulating HOXD10 0 TFs

Transcription factors with Perturb-seq knockdown data for HOXD10. 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 = HOXD10 upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.

TF	Mean coef	Binding	Outlier	TF→Gene link

Rows:

Elements linked to HOXD10

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of HOXD10, 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.

Element	Dist. to TSS	Link type	TFs
chr2:175,980,827–175,982,249	135.3 kb	Distal (>10kb) Multiome	156
chr2:176,001,269–176,002,875	114.5 kb	Distal (>10kb) Multiome	1003
chr2:176,079,159–176,081,284	36.6 kb	Distal (>10kb) Multiome	591
chr2:176,087,237–176,089,163	28.2 kb	Distal (>10kb) Multiome	475
chr2:176,091,485–176,093,664	24.1 kb	Distal (>10kb) Multiome	351
chr2:176,096,693–176,099,096	19.1 kb	Distal (>10kb) Multiome	661
chr2:176,106,474–176,108,077	9.4 kb	Proximal (<10kb) Multiome	426
chr2:176,111,299–176,111,695	5.1 kb	Proximal (<10kb)	166
chr2:176,115,942–176,116,781	at TSS	At TSS	202
chr2:176,122,221–176,123,570	6.0 kb	Proximal (<10kb) Multiome	242
chr2:176,140,289–176,141,245	24.0 kb	Distal (>10kb) Multiome	712
chr2:176,158,845–176,160,665	42.3 kb	Distal (>10kb) Multiome	325
chr2:176,174,987–176,175,675	58.4 kb	Distal (>10kb) Multiome	273
chr2:176,177,721–176,178,875	61.5 kb	Distal (>10kb) Multiome	271
chr2:176,188,129–176,189,887	71.9 kb	Distal (>10kb) Multiome	652
chr2:176,269,105–176,270,145	152.7 kb	Distal (>10kb) Multiome	1001

Genome Browser

Genomic view of the HOXD10 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.