Variant report

Variant	rs9366890
Chromosome Location	chr6:35562974-35562975
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:35560305..35561817-chr6:35562923..35565288,2	K562	blood:
2	chr6:35561662..35565304-chr6:35696255..35699445,3	K562	blood:
3	chr6:35561670..35563594-chr6:35565549..35568332,2	K562	blood:
4	chr6:35562676..35564352-chr6:35607692..35610435,2	K562	blood:

Variant related genes	Relation type
ENSG00000096060	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs1043805	0.94[CEU][hapmap];0.91[CHB][hapmap];0.85[YRI][hapmap]
rs10807152	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1413896	0.90[JPT][hapmap];1.00[YRI][hapmap]
rs2143404	0.81[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs2395633	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2395635	1.00[JPT][hapmap]
rs3798345	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3800374	0.86[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.89[YRI][hapmap];0.81[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs4401662	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4713899	0.90[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6457836	0.81[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6912833	1.00[JPT][hapmap]
rs6926133	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7740395	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7746850	0.81[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7748266	0.91[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7753746	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7760951	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7763535	1.00[JPT][hapmap]
rs7771727	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9296157	0.87[CEU][hapmap];0.83[CHB][hapmap]
rs9394309	1.00[JPT][hapmap];0.83[YRI][hapmap]
rs943297	1.00[JPT][hapmap]
rs9462104	1.00[JPT][hapmap]
rs9470055	0.90[JPT][hapmap];1.00[YRI][hapmap]
rs992105	0.93[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.89[YRI][hapmap];0.89[AFR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:29 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758048	chr6:35463741-35806504	Genic enhancers Weak transcription Active TSS Bivalent Enhancer Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	esv2759420	chr6:35463741-35806504	Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	esv2761067	chr6:35471246-35573245	Weak transcription Genic enhancers Strong transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv1034786	chr6:35476562-35564799	Genic enhancers Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
5	nsv1031987	chr6:35476562-35579375	Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
6	nsv1032973	chr6:35481880-35564799	Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
7	nsv7889	chr6:35495503-35566388	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
8	esv3692893	chr6:35498098-35565422	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
9	nsv462913	chr6:35502202-35592744	Enhancers Genic enhancers ZNF genes & repeats Strong transcription Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
10	nsv602923	chr6:35502202-35592744	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
11	nsv517211	chr6:35502202-35607571	Enhancers Weak transcription Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
12	nsv1026252	chr6:35502604-35564799	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
13	nsv1026532	chr6:35502604-35568562	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
14	nsv1021675	chr6:35502604-35569281	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
15	nsv1023091	chr6:35502604-35573233	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
16	nsv1034413	chr6:35504136-35564799	Weak transcription Active TSS Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
17	nsv1020720	chr6:35505311-35564799	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
18	esv2421382	chr6:35505311-35564811	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
19	nsv441992	chr6:35505311-35564811	Genic enhancers Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
20	nsv1017625	chr6:35505311-35576552	Transcr. at gene 5' and 3' Strong transcription Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
21	nsv1019593	chr6:35505311-35579375	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
22	nsv602924	chr6:35505311-35750299	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
23	nsv1028721	chr6:35506731-35564799	Weak transcription Strong transcription Genic enhancers Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
24	nsv1022049	chr6:35506731-35576552	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
25	nsv1028396	chr6:35507179-35564799	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
26	nsv1026200	chr6:35507179-35568562	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
27	nsv1025296	chr6:35507179-35579375	Enhancers Genic enhancers Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
28	nsv885801	chr6:35537406-35671651	Enhancers Active TSS Strong transcription Flanking Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
29	esv3430300	chr6:35549151-35959004	Flanking Active TSS Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35533600-35563800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr6:35534400-35569000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr6:35535000-35564600	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr6:35539800-35568400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr6:35541200-35570200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:35545000-35564200	Weak transcription	Hela-S3	cervix
7	chr6:35545000-35564400	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr6:35545000-35565000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr6:35545000-35567800	Weak transcription	Stomach Mucosa	stomach
10	chr6:35545000-35568800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr6:35545000-35601800	Weak transcription	Fetal Intestine Small	intestine
12	chr6:35545200-35568800	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr6:35545400-35569200	Weak transcription	Placenta	Placenta
14	chr6:35549400-35565400	Strong transcription	Rectal Mucosa Donor 31	rectum
15	chr6:35551200-35565200	Genic enhancers	Primary T helper cells fromperipheralblood	blood
16	chr6:35552000-35564200	Weak transcription	NHLF	lung
17	chr6:35552000-35565600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr6:35553800-35564400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
19	chr6:35553800-35564800	Strong transcription	Sigmoid Colon	Sigmoid Colon
20	chr6:35554400-35564000	Weak transcription	Fetal Kidney	kidney
21	chr6:35554800-35569200	Weak transcription	Fetal Intestine Large	intestine
22	chr6:35555000-35568000	Weak transcription	Primary B cells from peripheral blood	blood
23	chr6:35555200-35564200	Weak transcription	NH-A	brain
24	chr6:35555200-35564200	Weak transcription	Osteobl	bone
25	chr6:35555400-35568800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr6:35555400-35569000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr6:35555800-35565800	Strong transcription	Monocytes-CD14+_RO01746	blood
28	chr6:35556200-35565400	Strong transcription	Primary monocytes fromperipheralblood	blood
29	chr6:35556200-35567800	Weak transcription	Primary B cells from cord blood	blood
30	chr6:35557000-35565800	Strong transcription	Duodenum Mucosa	Duodenum
31	chr6:35557200-35564200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr6:35557200-35564600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr6:35557600-35563600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr6:35557600-35564400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
35	chr6:35557600-35569000	Weak transcription	H1 Cell Line	embryonic stem cell
36	chr6:35558600-35564600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
37	chr6:35558600-35569200	Weak transcription	Fetal Muscle Leg	muscle
38	chr6:35558600-35580400	Weak transcription	Fetal Muscle Trunk	muscle
39	chr6:35558800-35564200	Strong transcription	HMEC	breast
40	chr6:35559000-35564200	Weak transcription	Fetal Stomach	stomach
41	chr6:35559000-35567800	Weak transcription	Placenta Amnion	Placenta Amnion
42	chr6:35559200-35564200	Strong transcription	HSMM	muscle
43	chr6:35559200-35564200	Weak transcription	HSMMtube	muscle
44	chr6:35559800-35563000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr6:35560000-35564600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
46	chr6:35560000-35565400	Genic enhancers	Primary T cells fromperipheralblood	blood
47	chr6:35560000-35565400	Strong transcription	Lung	lung
48	chr6:35560200-35564600	Weak transcription	Rectal Smooth Muscle	rectum
49	chr6:35560200-35565800	Strong transcription	Thymus	Thymus
50	chr6:35560200-35567600	Weak transcription	Pancreatic Islets	Pancreatic Islet

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