Variant report

Variant	rs34223404
Chromosome Location	chr6:28294499-28294500
allele	C/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	CBX3	chr6:28293996-28294821	K562	blood:	n/a	n/a
2	TRIM28	chr6:28294039-28294638	K562	blood:	n/a	n/a
3	SETDB1	chr6:28293942-28294780	U2OS	brain:	n/a	n/a
4	CBX3	chr6:28294045-28294634	HCT-116	colon:	n/a	n/a
5	CBX3	chr6:28293864-28294780	K562	blood:	n/a	n/a
6	TCF12	chr6:28293957-28294609	A549	lung:	n/a	n/a
7	KAP1	chr6:28294009-28294675	HEK293	kidney:	n/a	n/a
8	SETDB1	chr6:28293310-28295649	K562	blood:	n/a	n/a
9	TRIM28	chr6:28294130-28294534	K562	blood:	n/a	n/a
10	KAP1	chr6:28293750-28294992	K562	blood:	n/a	n/a
11	TEAD4	chr6:28294057-28294575	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:28293963..28296628-chr6:28301528..28305497,4	MCF-7	breast:

Variant related genes	Relation type
ZSCAN31	TF binding region
ENSG00000235109	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs1150682	1.00[EUR][1000 genomes]
rs1225593	1.00[EUR][1000 genomes]
rs1619221	1.00[EUR][1000 genomes]
rs175955	1.00[EUR][1000 genomes]
rs1770132	1.00[EUR][1000 genomes]
rs2622318	1.00[EUR][1000 genomes]
rs55826226	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs57481919	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57672617	1.00[EUR][1000 genomes]
rs60005089	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73740585	1.00[EUR][1000 genomes]
rs73740597	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73740600	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73740605	1.00[EUR][1000 genomes]
rs73740628	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73740636	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73742514	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73742515	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73742531	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73742537	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830620	chr6:28173997-28348033	Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	51 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28288200-28299200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr6:28290600-28295800	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
3	chr6:28290800-28298200	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
4	chr6:28291400-28295600	ZNF genes & repeats	Ovary	ovary
5	chr6:28291400-28298000	ZNF genes & repeats	Liver	Liver
6	chr6:28291600-28295600	ZNF genes & repeats	Psoas Muscle	Psoas
7	chr6:28291600-28295600	ZNF genes & repeats	Skeletal Muscle Male	skeletal muscle
8	chr6:28291600-28295600	ZNF genes & repeats	Skeletal Muscle Female	skeletal muscle
9	chr6:28291600-28296000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr6:28291800-28295600	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
11	chr6:28292000-28295800	ZNF genes & repeats	Fetal Muscle Leg	muscle
12	chr6:28292600-28295600	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
13	chr6:28292600-28295600	ZNF genes & repeats	Primary hematopoietic stem cells	blood
14	chr6:28292600-28295600	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
15	chr6:28292600-28297200	ZNF genes & repeats	Stomach Smooth Muscle	stomach
16	chr6:28292800-28294600	ZNF genes & repeats	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr6:28292800-28295600	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
18	chr6:28292800-28295600	ZNF genes & repeats	Left Ventricle	heart
19	chr6:28292800-28295600	ZNF genes & repeats	Right Ventricle	heart
20	chr6:28292800-28295600	ZNF genes & repeats	HSMMtube	muscle
21	chr6:28292800-28295800	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr6:28292800-28295800	ZNF genes & repeats	Adipose Nuclei	Adipose
23	chr6:28293000-28295600	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
24	chr6:28293000-28295600	ZNF genes & repeats	Duodenum Mucosa	Duodenum
25	chr6:28293200-28294600	Weak transcription	Placenta Amnion	Placenta Amnion
26	chr6:28293200-28295400	ZNF genes & repeats	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr6:28293200-28295600	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr6:28293200-28295600	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
29	chr6:28293200-28295600	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
30	chr6:28293200-28295800	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr6:28293400-28295000	ZNF genes & repeats	Brain Cingulate Gyrus	brain
32	chr6:28293400-28295400	ZNF genes & repeats	iPS-18 Cell Line	embryonic stem cell
33	chr6:28293400-28295400	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr6:28293400-28295400	ZNF genes & repeats	Primary neutrophils fromperipheralblood	blood
35	chr6:28293400-28295400	ZNF genes & repeats	Brain Angular Gyrus	brain
36	chr6:28293400-28295600	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
37	chr6:28293400-28295600	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
38	chr6:28293400-28295600	ZNF genes & repeats	Colon Smooth Muscle	Colon
39	chr6:28293400-28295600	ZNF genes & repeats	Fetal Brain Female	brain
40	chr6:28293600-28295000	ZNF genes & repeats	Fetal Stomach	stomach
41	chr6:28293600-28295400	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr6:28293600-28295400	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr6:28293600-28295400	ZNF genes & repeats	Fetal Adrenal Gland	Adrenal Gland
44	chr6:28293600-28295400	ZNF genes & repeats	Fetal Intestine Large	intestine
45	chr6:28293600-28295400	ZNF genes & repeats	Fetal Muscle Trunk	muscle
46	chr6:28293600-28295400	ZNF genes & repeats	Placenta	Placenta
47	chr6:28293600-28295400	ZNF genes & repeats	Rectal Smooth Muscle	rectum
48	chr6:28293600-28295600	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
49	chr6:28293600-28295600	ZNF genes & repeats	Brain Anterior Caudate	brain
50	chr6:28293600-28295600	ZNF genes & repeats	Brain Substantia Nigra	brain

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