Variant report

Variant	rs28359970
Chromosome Location	chr6:29584580-29584581
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:29577860..29580564-chr6:29584385..29586719,2	K562	blood:
2	chr6:29584016..29586304-chr6:29588506..29590464,2	MCF-7	breast:
3	chr6:29581672..29583351-chr6:29584179..29587675,3	K562	blood:

Variant related genes	Relation type
ENSG00000204681	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs17508548	0.96[ASN][1000 genomes]
rs2057009	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2076483	0.96[ASN][1000 genomes]
rs2267633	0.96[ASN][1000 genomes]
rs28359963	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28893513	0.96[ASN][1000 genomes]
rs28986300	0.86[ASN][1000 genomes]
rs28986304	0.97[ASN][1000 genomes]
rs29230	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs29259	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs29267	0.96[ASN][1000 genomes]
rs362518	0.97[ASN][1000 genomes]
rs41291770	0.92[ASN][1000 genomes]
rs6900577	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758039	chr6:29469101-29672665	Flanking Active TSS Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	esv2759411	chr6:29469101-29672665	Active TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv528285	chr6:29566842-29588146	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv462671	chr6:29566842-29588146	Strong transcription Weak transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv601229	chr6:29566842-29588146	Strong transcription Weak transcription Genic enhancers Transcr. at gene 5' and 3' Enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:29566400-29595200	Weak transcription	Right Atrium	heart
2	chr6:29566600-29587000	Strong transcription	Primary neutrophils fromperipheralblood	blood
3	chr6:29566800-29584600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr6:29566800-29590000	Strong transcription	H9 Cell Line	embryonic stem cell
5	chr6:29566800-29590600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr6:29567000-29589800	Strong transcription	HUES6 Cell Line	embryonic stem cell
7	chr6:29567200-29589400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
8	chr6:29567200-29589800	Strong transcription	HUES64 Cell Line	embryonic stem cell
9	chr6:29567600-29592400	Strong transcription	Fetal Stomach	stomach
10	chr6:29567600-29595400	Weak transcription	A549	lung
11	chr6:29567800-29584600	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr6:29568600-29595200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
13	chr6:29569000-29584600	Strong transcription	Spleen	Spleen
14	chr6:29569000-29592400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr6:29569200-29592200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr6:29569400-29592000	Strong transcription	Stomach Smooth Muscle	stomach
17	chr6:29569400-29595600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr6:29570800-29589600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
19	chr6:29571600-29589800	Strong transcription	HUES48 Cell Line	embryonic stem cell
20	chr6:29572000-29590000	Strong transcription	H1 Cell Line	embryonic stem cell
21	chr6:29572200-29588800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr6:29572200-29595600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
23	chr6:29572400-29592000	Strong transcription	Fetal Brain Female	brain
24	chr6:29572400-29593000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr6:29572800-29586000	Strong transcription	iPS-15b Cell Line	embryonic stem cell
26	chr6:29573000-29591000	Weak transcription	Duodenum Mucosa	Duodenum
27	chr6:29574400-29595400	Weak transcription	Rectal Mucosa Donor 29	rectum
28	chr6:29574800-29595000	Weak transcription	Pancreas	Pancrea
29	chr6:29575200-29588800	Weak transcription	Primary T cells fromperipheralblood	blood
30	chr6:29575200-29590800	Weak transcription	Primary T cells from cord blood	blood
31	chr6:29575400-29591600	Weak transcription	Colonic Mucosa	Colon
32	chr6:29575600-29587000	Weak transcription	Skeletal Muscle Female	skeletal muscle
33	chr6:29576200-29588200	Weak transcription	Rectal Smooth Muscle	rectum
34	chr6:29576400-29588400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr6:29576800-29589600	Weak transcription	Skeletal Muscle Male	skeletal muscle
36	chr6:29576800-29589800	Weak transcription	Placenta	Placenta
37	chr6:29577000-29591600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
38	chr6:29577400-29585400	Weak transcription	NHDF-Ad	bronchial
39	chr6:29577400-29587000	Weak transcription	Gastric	stomach
40	chr6:29577400-29590200	Weak transcription	Fetal Intestine Small	intestine
41	chr6:29577600-29585400	Weak transcription	Fetal Brain Male	brain
42	chr6:29577600-29595400	Weak transcription	Rectal Mucosa Donor 31	rectum
43	chr6:29577800-29588600	Weak transcription	HSMM	muscle
44	chr6:29578800-29589800	Weak transcription	Esophagus	oesophagus
45	chr6:29578800-29595200	Weak transcription	Pancreatic Islets	Pancreatic Islet
46	chr6:29579200-29587000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
47	chr6:29579200-29588800	Weak transcription	Brain Hippocampus Middle	brain
48	chr6:29579600-29589800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
49	chr6:29580400-29592200	Strong transcription	Muscle Satellite Cultured Cells	--
50	chr6:29581200-29591600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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