Variant report

Variant	rs4829260
Chromosome Location	chrX:29680441-29680442
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:37940088..37941001-chrX:29680329..29680874,2	Hela-S3	cervix:

Variant related genes	Relation type
ENSG00000163874	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs12116114	1.00[CEU][hapmap]
rs4076955	1.00[CEU][hapmap]
rs4076956	0.87[TSI][hapmap]
rs4829118	0.94[TSI][hapmap]
rs4829120	0.83[GIH][hapmap];1.00[MEX][hapmap];0.87[TSI][hapmap]
rs4829253	1.00[CEU][hapmap]
rs5971651	1.00[CEU][hapmap]
rs5972557	0.81[TSI][hapmap]
rs6526913	1.00[CEU][hapmap]
rs7051233	0.87[TSI][hapmap]
rs7052954	1.00[GIH][hapmap];0.93[TSI][hapmap]
rs7056388	0.83[GIH][hapmap];0.87[TSI][hapmap]
rs7890572	0.87[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432292	chrX:29109744-29845461	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
2	nsv531766	chrX:29225499-29928832	Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
3	nsv948944	chrX:29398264-29902917	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Strong transcription	TF binding region Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
4	nsv869450	chrX:29433295-29940875	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Strong transcription	TF binding region Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
5	nsv869408	chrX:29619835-30341063	Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv534236	chrX:29637266-29908300	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv527992	chrX:29638278-29691517	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
8	nsv949460	chrX:29680441-29902917	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chrX:29678600-29681000	Weak transcription	NHLF	lung
2	chrX:29678800-29681000	Enhancers	HUVEC	blood vessel
3	chrX:29678800-29682200	Enhancers	Hela-S3	cervix
4	chrX:29679000-29681000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chrX:29679200-29680600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chrX:29679400-29680600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chrX:29679400-29681200	Enhancers	HMEC	breast
8	chrX:29679400-29681400	Enhancers	ES-I3 Cell Line	embryonic stem cell
9	chrX:29679600-29680600	Flanking Active TSS	A549	lung
10	chrX:29679600-29681200	Enhancers	Brain Anterior Caudate	brain
11	chrX:29679600-29683000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chrX:29679800-29680800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chrX:29679800-29682000	Enhancers	Osteobl	bone
14	chrX:29680000-29680600	Flanking Active TSS	NH-A	brain
15	chrX:29680000-29681000	Enhancers	Brain Inferior Temporal Lobe	brain
16	chrX:29680000-29681200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chrX:29680000-29681200	Enhancers	Brain Substantia Nigra	brain
18	chrX:29680200-29680600	Weak transcription	HSMM	muscle
19	chrX:29680200-29680800	Weak transcription	NHDF-Ad	bronchial
20	chrX:29680200-29681000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chrX:29680200-29681200	Enhancers	Muscle Satellite Cultured Cells	--
22	chrX:29680200-29681200	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
23	chrX:29680200-29681400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
24	chrX:29680200-29681400	Enhancers	Colon Smooth Muscle	Colon
25	chrX:29680200-29681400	Enhancers	Rectal Smooth Muscle	rectum
26	chrX:29680200-29681400	Weak transcription	HSMMtube	muscle
27	chrX:29680400-29680600	Enhancers	Duodenum Smooth Muscle	Duodenum
28	chrX:29680400-29681000	Enhancers	NHEK	skin
29	chrX:29680400-29681200	Enhancers	Brain Cingulate Gyrus	brain
30	chrX:29680400-29681400	Enhancers	HUES6 Cell Line	embryonic stem cell
31	chrX:29680400-29682000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chrX:29680400-29682000	Weak transcription	Brain Angular Gyrus	brain

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