Variant report

Variant	rs9766101
Chromosome Location	chr6:149925690-149925691
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	POLR2A	chr6:149925438-149925856	K562	blood:	n/a	n/a
2	POLR2A	chr6:149925650-149925746	MCF-7	breast:	n/a	n/a

Variant related genes	Relation type
KATNA1	TF binding region

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11961451	0.83[EUR][1000 genomes]
rs11961781	1.00[TSI][hapmap]
rs11963610	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11966407	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11968366	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17087579	1.00[TSI][hapmap]
rs17088269	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3806983	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56149740	1.00[ASN][1000 genomes]
rs57880524	0.83[EUR][1000 genomes]
rs58651413	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6927395	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73604757	0.92[AFR][1000 genomes]
rs73606794	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9765961	1.00[EUR][1000 genomes];1.00[ASN][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	nsv289	chr6:149864898-149998818	Flanking Active TSS Weak transcription Strong transcription Active TSS ZNF genes & repeats Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv5534	chr6:149864898-149998818	Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
3	nsv886762	chr6:149866452-150174507	Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
4	esv1794633	chr6:149903597-149944908	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	esv1792620	chr6:149909491-150083621	Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149889000-149928000	Weak transcription	Stomach Mucosa	stomach
2	chr6:149889600-149931400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr6:149893800-149926600	Strong transcription	Monocytes-CD14+_RO01746	blood
4	chr6:149898600-149927400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr6:149899200-149929800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
6	chr6:149900200-149926800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:149902800-149929000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr6:149905200-149926200	Strong transcription	Fetal Stomach	stomach
9	chr6:149907000-149925800	Strong transcription	Fetal Thymus	thymus
10	chr6:149907600-149925800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr6:149909000-149935000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr6:149910000-149935200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr6:149910800-149926000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr6:149911200-149925800	Strong transcription	Primary neutrophils fromperipheralblood	blood
15	chr6:149911400-149927400	Strong transcription	Primary monocytes fromperipheralblood	blood
16	chr6:149912800-149925800	Strong transcription	Fetal Muscle Leg	muscle
17	chr6:149915200-149935000	Weak transcription	Small Intestine	intestine
18	chr6:149915400-149926400	Weak transcription	Hela-S3	cervix
19	chr6:149915400-149929000	Weak transcription	Fetal Brain Male	brain
20	chr6:149915600-149935200	Weak transcription	Esophagus	oesophagus
21	chr6:149915600-149968400	Weak transcription	Pancreas	Pancrea
22	chr6:149915600-149969200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr6:149915800-149934800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr6:149915800-149969200	Weak transcription	Gastric	stomach
25	chr6:149916000-149935000	Weak transcription	Spleen	Spleen
26	chr6:149916000-149943000	Weak transcription	Colonic Mucosa	Colon
27	chr6:149916400-149934600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
28	chr6:149916400-149950200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
29	chr6:149916800-149926000	Strong transcription	Fetal Lung	lung
30	chr6:149917400-149925800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr6:149917400-149925800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
32	chr6:149917600-149934800	Weak transcription	Psoas Muscle	Psoas
33	chr6:149918400-149925800	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr6:149918400-149926000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
35	chr6:149918400-149926800	Weak transcription	H9 Cell Line	embryonic stem cell
36	chr6:149918400-149929600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr6:149918400-149935400	Weak transcription	HMEC	breast
38	chr6:149918400-149950200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
39	chr6:149918800-149934800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr6:149918800-149934800	Weak transcription	Brain Substantia Nigra	brain
41	chr6:149918800-149967600	Weak transcription	HUVEC	blood vessel
42	chr6:149918800-149967600	Weak transcription	NHLF	lung
43	chr6:149919000-149943000	Weak transcription	NHDF-Ad	bronchial
44	chr6:149919200-149935000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr6:149919400-149929600	Weak transcription	GM12878-XiMat	blood
46	chr6:149919400-149934000	Weak transcription	Primary hematopoietic stem cells	blood
47	chr6:149919400-149934800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
48	chr6:149919400-149940600	Weak transcription	Brain Cingulate Gyrus	brain
49	chr6:149919400-149949000	Weak transcription	Osteobl	bone
50	chr6:149919600-149935000	Weak transcription	Lung	lung

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