Variant report

Variant	rs10499088
Chromosome Location	chr6:119027955-119027956
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:119020899..119024198-chr6:119027287..119029585,3	MCF-7	breast:
2	chr6:119027726..119029678-chr6:119052215..119053776,2	K562	blood:
3	chr6:119025003..119027985-chr6:119208715..119210958,2	K562	blood:
4	chr6:119025081..119026772-chr6:119027476..119030330,2	MCF-7	breast:
5	chr6:119027193..119028788-chr6:119215908..119217917,2	K562	blood:
6	chr6:119026092..119028989-chr6:119074948..119078427,3	K562	blood:

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10485390	1.00[CHB][hapmap]
rs17349301	1.00[ASW][hapmap];0.92[GIH][hapmap];1.00[MEX][hapmap]
rs17694991	0.86[CEU][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1891713	1.00[ASW][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];0.92[GIH][hapmap];1.00[MEX][hapmap]
rs1891715	0.92[GIH][hapmap];1.00[MEX][hapmap]
rs3902035	0.82[CEU][hapmap]
rs62422258	0.80[AMR][1000 genomes]
rs62424001	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62424002	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72962946	0.82[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532051	chr6:118551027-119044197	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats 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	9 gene(s)	inside rSNPs	diseases
2	nsv1020463	chr6:118593028-119146363	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv1025403	chr6:118635123-119122551	Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv1025456	chr6:118669672-119058789	Active TSS Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Genic enhancers 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	9 gene(s)	inside rSNPs	diseases
5	nsv1027444	chr6:118687556-119121660	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
6	nsv538428	chr6:118687556-119121660	Flanking Active TSS Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
7	nsv949321	chr6:118692304-119137658	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
8	nsv1025097	chr6:118699752-119058789	Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
9	nsv532052	chr6:118711850-119057295	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
10	nsv604556	chr6:118722589-119065365	Active TSS Strong transcription Enhancers Weak transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
11	nsv949416	chr6:118772508-119033063	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
12	nsv948980	chr6:118772508-119137658	Genic enhancers Flanking Active TSS Active TSS Enhancers Strong transcription Weak transcription ZNF genes & repeats 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	10 gene(s)	inside rSNPs	diseases
13	nsv604559	chr6:118786486-119113317	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
14	nsv1022865	chr6:118786586-119058789	ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
15	nsv1020405	chr6:118786586-119241006	ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
16	nsv830788	chr6:119014021-119143652	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
17	nsv1023826	chr6:119026481-119221408	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:119024200-119029800	Enhancers	Primary B cells from peripheral blood	blood
2	chr6:119025400-119028000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr6:119025400-119028200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr6:119025400-119028400	Genic enhancers	Fetal Thymus	thymus
5	chr6:119025400-119029400	Enhancers	Fetal Muscle Leg	muscle
6	chr6:119025400-119029800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr6:119025800-119028000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr6:119026000-119028000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr6:119026000-119028000	Enhancers	iPS-15b Cell Line	embryonic stem cell
10	chr6:119026000-119028200	Enhancers	iPS-18 Cell Line	embryonic stem cell
11	chr6:119026000-119029800	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
12	chr6:119026200-119028400	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
13	chr6:119026200-119028600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr6:119026200-119029200	Enhancers	Fetal Brain Male	brain
15	chr6:119026400-119028200	Enhancers	HUES6 Cell Line	embryonic stem cell
16	chr6:119026400-119028200	Flanking Active TSS	Osteobl	bone
17	chr6:119026400-119028400	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
18	chr6:119026600-119028200	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr6:119026600-119028400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr6:119026600-119028400	Enhancers	Fetal Heart	heart
21	chr6:119026600-119029600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr6:119026800-119028400	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
23	chr6:119026800-119028400	Enhancers	A549	lung
24	chr6:119026800-119028400	Flanking Active TSS	NH-A	brain
25	chr6:119026800-119029800	Weak transcription	Brain Germinal Matrix	brain
26	chr6:119026800-119030200	Flanking Active TSS	Dnd41	blood
27	chr6:119027000-119028000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr6:119027000-119028000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr6:119027000-119028000	Weak transcription	H9 Cell Line	embryonic stem cell
30	chr6:119027000-119028000	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
31	chr6:119027000-119028000	Weak transcription	Sigmoid Colon	Sigmoid Colon
32	chr6:119027000-119028400	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
33	chr6:119027000-119030000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
34	chr6:119027000-119030200	Weak transcription	Ovary	ovary
35	chr6:119027200-119028000	Active TSS	Primary T helper 17 cells PMA-I stimulated	--
36	chr6:119027200-119028000	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr6:119027200-119029400	Weak transcription	Right Ventricle	heart
38	chr6:119027200-119029400	Weak transcription	Stomach Mucosa	stomach
39	chr6:119027200-119030200	Weak transcription	Fetal Muscle Trunk	muscle
40	chr6:119027200-119030400	Weak transcription	Lung	lung
41	chr6:119027400-119028000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr6:119027400-119028200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr6:119027400-119028200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr6:119027400-119028200	Enhancers	Monocytes-CD14+_RO01746	blood
45	chr6:119027400-119028400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr6:119027400-119028400	Enhancers	Psoas Muscle	Psoas
47	chr6:119027400-119029000	Enhancers	K562	blood
48	chr6:119027400-119029200	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
49	chr6:119027400-119029200	Enhancers	Thymus	Thymus
50	chr6:119027400-119029400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin

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