Variant report

Variant	rs10402838
Chromosome Location	chr19:36965954-36965955
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr19:36962037..36966050-chr19:36978792..36981702,4	MCF-7	breast:
2	chr19:36965657..36967855-chr19:36968852..36972035,4	K562	blood:
3	chr19:36965657..36967339-chr19:36969186..36972035,2	K562	blood:
4	chr19:36963358..36966840-chr19:36977934..36981487,4	K562	blood:

Variant related genes	Relation type
ENSG00000186017	Chromatin interaction
ENSG00000267309	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10407389	0.94[ASN][1000 genomes]
rs10409996	1.00[ASN][1000 genomes]
rs10410711	0.88[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10411104	1.00[ASN][1000 genomes]
rs10411232	0.96[ASN][1000 genomes]
rs10416494	1.00[ASN][1000 genomes]
rs10417866	1.00[ASN][1000 genomes]
rs10421862	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17238963	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs28520081	0.94[ASN][1000 genomes]
rs28848010	0.90[AFR][1000 genomes]
rs2967536	0.91[ASN][1000 genomes]
rs71356003	0.98[ASN][1000 genomes]
rs71356007	0.85[ASN][1000 genomes]
rs9676533	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9676958	0.83[CHB][hapmap]
rs9967600	0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833816	chr19:36824257-37034287	ZNF genes & repeats Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
2	nsv1064851	chr19:36910259-37689721	Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
3	nsv911648	chr19:36914171-37047472	Weak transcription Active TSS Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
4	nsv1065698	chr19:36916796-37690124	Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
5	nsv543999	chr19:36916796-37690124	Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Strong transcription Enhancers 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	61 gene(s)	inside rSNPs	diseases
6	nsv1067364	chr19:36921204-36985874	ZNF genes & repeats Active TSS Weak transcription Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
7	nsv529817	chr19:36930549-37654062	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:36936400-36978400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr19:36941000-36979000	Weak transcription	Hela-S3	cervix
3	chr19:36942600-36966200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr19:36944800-36969600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr19:36945800-36979000	Weak transcription	Fetal Heart	heart
6	chr19:36947600-36977400	ZNF genes & repeats	Liver	Liver
7	chr19:36953200-36967600	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr19:36953200-36967800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr19:36953400-36967600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr19:36954000-36972200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr19:36954400-36967800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr19:36955200-36966400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr19:36955200-36966600	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr19:36955400-36966400	ZNF genes & repeats	Primary hematopoietic stem cells	blood
15	chr19:36955600-36967200	Strong transcription	Cortex derived primary cultured neurospheres	brain
16	chr19:36956000-36966000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr19:36956000-36966600	Strong transcription	Dnd41	blood
18	chr19:36957200-36966600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr19:36957200-36966600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
20	chr19:36957200-36979600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr19:36957400-36979400	Weak transcription	NH-A	brain
22	chr19:36958200-36967600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr19:36958800-36967000	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
24	chr19:36958800-36971200	ZNF genes & repeats	A549	lung
25	chr19:36959600-36967200	Strong transcription	Primary T cells fromperipheralblood	blood
26	chr19:36960000-36966600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
27	chr19:36960200-36966000	Strong transcription	Fetal Muscle Leg	muscle
28	chr19:36960200-36966800	Strong transcription	Fetal Intestine Large	intestine
29	chr19:36960400-36979600	Weak transcription	H9 Cell Line	embryonic stem cell
30	chr19:36960800-36966400	ZNF genes & repeats	Duodenum Mucosa	Duodenum
31	chr19:36960800-36966600	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr19:36961200-36966600	Strong transcription	Left Ventricle	heart
33	chr19:36961400-36966600	Strong transcription	Stomach Smooth Muscle	stomach
34	chr19:36962200-36966400	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
35	chr19:36962200-36966400	Strong transcription	HSMMtube	muscle
36	chr19:36962200-36966600	Strong transcription	Brain Hippocampus Middle	brain
37	chr19:36962200-36966600	Strong transcription	Rectal Mucosa Donor 29	rectum
38	chr19:36962600-36968200	Strong transcription	Brain Germinal Matrix	brain
39	chr19:36962800-36966400	Strong transcription	Aorta	Aorta
40	chr19:36963000-36966600	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
41	chr19:36963200-36967800	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
42	chr19:36963400-36979200	Weak transcription	Muscle Satellite Cultured Cells	--
43	chr19:36963600-36966000	ZNF genes & repeats	Rectal Mucosa Donor 31	rectum
44	chr19:36963800-36969400	Weak transcription	Spleen	Spleen
45	chr19:36964000-36966000	Weak transcription	Fetal Stomach	stomach
46	chr19:36964000-36966000	Weak transcription	Psoas Muscle	Psoas
47	chr19:36964000-36970600	Weak transcription	NHDF-Ad	bronchial
48	chr19:36964000-36975000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr19:36964000-36979800	Weak transcription	Esophagus	oesophagus
50	chr19:36964200-36966000	ZNF genes & repeats	Primary T killer naive cells fromperipheralblood	blood

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