Variant report

Variant	rs6832789
Chromosome Location	chr4:15587897-15587898
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	STAT3	chr4:15587754-15587952	MCF10A-Er-Src	breast:	n/a	n/a
2	CEBPB	chr4:15587872-15587968	A549	lung:	n/a	chr4:15587934-15587945
3	E2F4	chr4:15587611-15588110	MCF10A-Er-Src	breast:	n/a	n/a
4	CEBPB	chr4:15587785-15588065	Hela-S3	cervix:	n/a	chr4:15587934-15587945

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:15587526..15589843-chr4:15593660..15596117,2	K562	blood:
2	chr4:15587802..15589843-chr4:15592356..15595160,2	K562	blood:

Variant related genes	Relation type
CC2D2A	TF binding region

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10003929	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10005158	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10006230	0.95[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10027900	1.00[AMR][1000 genomes]
rs10034462	0.91[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10223039	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11930259	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13327973	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13328011	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28374013	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28489118	0.87[AFR][1000 genomes]
rs28546094	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4698115	1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6821494	1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6844272	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7437025	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7656942	0.87[YRI][hapmap]
rs7658171	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7658528	1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7674380	1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7684550	1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7690497	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9884443	1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3448986	chr4:14928802-15805558	Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	esv2757923	chr4:15444617-15749520	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	esv2759227	chr4:15444617-15749520	Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv428439	chr4:15556961-15749520	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:87 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:15517800-15593600	Weak transcription	HUVEC	blood vessel
2	chr4:15537400-15621000	Weak transcription	Hela-S3	cervix
3	chr4:15546000-15589600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr4:15550000-15617800	Weak transcription	Thymus	Thymus
5	chr4:15554600-15601400	Weak transcription	A549	lung
6	chr4:15555800-15589400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr4:15556000-15603200	Weak transcription	Fetal Thymus	thymus
8	chr4:15564000-15600600	Weak transcription	Rectal Smooth Muscle	rectum
9	chr4:15564400-15603200	Weak transcription	HMEC	breast
10	chr4:15564600-15603600	Weak transcription	Primary hematopoietic stem cells	blood
11	chr4:15565400-15612600	Weak transcription	Brain Substantia Nigra	brain
12	chr4:15565400-15621400	Weak transcription	Esophagus	oesophagus
13	chr4:15565600-15604200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr4:15565600-15611400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr4:15565800-15605000	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr4:15566200-15596800	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr4:15568400-15655600	Weak transcription	Gastric	stomach
18	chr4:15568600-15589400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr4:15569600-15588600	Weak transcription	HUES6 Cell Line	embryonic stem cell
20	chr4:15569600-15596400	Weak transcription	NHDF-Ad	bronchial
21	chr4:15569600-15603600	Weak transcription	Spleen	Spleen
22	chr4:15569600-15604200	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr4:15570200-15601800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr4:15570600-15588200	Weak transcription	HUES64 Cell Line	embryonic stem cell
25	chr4:15570600-15602000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr4:15570600-15602000	Weak transcription	Pancreas	Pancrea
27	chr4:15570800-15588800	Weak transcription	Psoas Muscle	Psoas
28	chr4:15570800-15589600	Weak transcription	Lung	lung
29	chr4:15571000-15597200	Weak transcription	Brain Hippocampus Middle	brain
30	chr4:15571200-15588000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
31	chr4:15571200-15588800	Weak transcription	Skeletal Muscle Female	skeletal muscle
32	chr4:15571400-15596000	Weak transcription	Brain Cingulate Gyrus	brain
33	chr4:15572000-15593400	Weak transcription	Fetal Brain Male	brain
34	chr4:15572200-15588200	Weak transcription	Adipose Nuclei	Adipose
35	chr4:15572200-15588600	Weak transcription	Cortex derived primary cultured neurospheres	brain
36	chr4:15572200-15591600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr4:15572200-15593600	Weak transcription	Brain Inferior Temporal Lobe	brain
38	chr4:15572200-15595600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr4:15572200-15601200	Weak transcription	NHLF	lung
40	chr4:15572200-15601800	Weak transcription	Brain Angular Gyrus	brain
41	chr4:15572200-15601800	Weak transcription	NHEK	skin
42	chr4:15572200-15604000	Weak transcription	Primary T cells from cord blood	blood
43	chr4:15572200-15604200	Weak transcription	Duodenum Mucosa	Duodenum
44	chr4:15572400-15596200	Weak transcription	Ovary	ovary
45	chr4:15572800-15588800	Weak transcription	Fetal Brain Female	brain
46	chr4:15573000-15588400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr4:15573200-15603800	Weak transcription	Fetal Intestine Small	intestine
48	chr4:15574800-15593200	Weak transcription	Brain Germinal Matrix	brain
49	chr4:15575200-15618000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
50	chr4:15576400-15592000	Weak transcription	Fetal Muscle Leg	muscle

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