Variant report

Variant	rs17087543
Chromosome Location	chr6:149837422-149837423
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	CUX1	chr6:149837405-149837464	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:149352653..149356079-chr6:149835245..149838856,4	MCF-7	breast:

Variant related genes	Relation type
RNU7-3P	TF binding region
ENSG00000236591	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs11961781	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11963075	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1339186	1.00[CEU][hapmap]
rs17087513	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17087545	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17087564	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17087579	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28366680	0.92[EUR][1000 genomes]
rs28843181	0.92[EUR][1000 genomes]
rs34652961	0.92[EUR][1000 genomes]
rs6570966	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6924497	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6928088	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6928699	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73602758	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73602774	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73604755	0.92[EUR][1000 genomes]
rs73604757	0.83[EUR][1000 genomes]
rs7746970	1.00[CEU][hapmap]
rs7761312	1.00[CEU][hapmap]
rs7764563	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530444	chr6:149654540-149848997	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	esv1832313	chr6:149789511-149840750	Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149806400-149844800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr6:149807000-149849000	Weak transcription	Gastric	stomach
3	chr6:149807200-149842600	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr6:149810800-149851600	Weak transcription	Esophagus	oesophagus
5	chr6:149811200-149860600	Weak transcription	Aorta	Aorta
6	chr6:149815600-149845000	Weak transcription	Small Intestine	intestine
7	chr6:149818400-149843800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr6:149818800-149845000	Weak transcription	A549	lung
9	chr6:149820400-149840800	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr6:149820400-149845200	Weak transcription	Hela-S3	cervix
11	chr6:149820400-149849000	Weak transcription	Psoas Muscle	Psoas
12	chr6:149820400-149850200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr6:149820600-149838400	Weak transcription	Rectal Smooth Muscle	rectum
14	chr6:149820600-149839400	Weak transcription	Thymus	Thymus
15	chr6:149820600-149842600	Weak transcription	Placenta Amnion	Placenta Amnion
16	chr6:149820600-149847800	Weak transcription	Brain Substantia Nigra	brain
17	chr6:149820600-149851400	Weak transcription	NHLF	lung
18	chr6:149820600-149865200	Weak transcription	Stomach Mucosa	stomach
19	chr6:149820800-149841800	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr6:149820800-149848200	Weak transcription	Pancreas	Pancrea
21	chr6:149821400-149839800	Weak transcription	HMEC	breast
22	chr6:149822600-149845000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr6:149823400-149839200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr6:149823800-149851800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr6:149824200-149842600	Weak transcription	Brain Germinal Matrix	brain
26	chr6:149824200-149846000	Weak transcription	Fetal Brain Male	brain
27	chr6:149824400-149862200	Strong transcription	Liver	Liver
28	chr6:149824600-149864200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr6:149825000-149851800	Weak transcription	Brain Cingulate Gyrus	brain
30	chr6:149825200-149839800	Weak transcription	Brain Anterior Caudate	brain
31	chr6:149825200-149850200	Weak transcription	Right Ventricle	heart
32	chr6:149825800-149841600	Weak transcription	Left Ventricle	heart
33	chr6:149826000-149847600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
34	chr6:149826800-149840400	Weak transcription	Brain Hippocampus Middle	brain
35	chr6:149829400-149837800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
36	chr6:149829600-149851600	Weak transcription	Colonic Mucosa	Colon
37	chr6:149829800-149842200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
38	chr6:149830400-149838400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr6:149830600-149865600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
40	chr6:149830800-149837600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
41	chr6:149830800-149838200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
42	chr6:149831000-149837800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr6:149831000-149838000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
44	chr6:149831400-149851800	Weak transcription	H9 Cell Line	embryonic stem cell
45	chr6:149832000-149865800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
46	chr6:149832200-149862200	Strong transcription	Primary T cells fromperipheralblood	blood
47	chr6:149832600-149840400	Weak transcription	Colon Smooth Muscle	Colon
48	chr6:149832600-149842200	Weak transcription	K562	blood
49	chr6:149832800-149844800	Weak transcription	Ovary	ovary
50	chr6:149832800-149850200	Weak transcription	Lung	lung

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