Variant report

Variant	rs6802811
Chromosome Location	chr3:156264685-156264686
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:156262516..156264945-chr3:156391485..156393520,2	MCF-7	breast:
2	chr3:156260735..156275674-chr3:156389736..156397850,44	K562	blood:
3	chr3:156264459..156269953-chr3:156392362..156396309,4	K562	blood:

Variant related genes	Relation type
ENSG00000243926	Chromatin interaction
ENSG00000163659	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10936027	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11710396	0.90[ASN][1000 genomes]
rs13065924	1.00[JPT][hapmap]
rs13068904	0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13083246	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13088140	0.91[CEU][hapmap];1.00[JPT][hapmap]
rs17354147	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2874390	0.85[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.86[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs3773717	1.00[CEU][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3773719	1.00[ASN][1000 genomes]
rs6441074	1.00[JPT][hapmap]
rs6441075	1.00[JPT][hapmap]
rs6441076	1.00[JPT][hapmap]
rs6764265	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6764992	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6771728	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71310479	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs71310481	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs756335	0.91[CEU][hapmap]
rs7619602	1.00[JPT][hapmap]
rs8665	1.00[JPT][hapmap]
rs9837799	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9917691	0.86[AFR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014755	chr3:155889430-156411894	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
2	nsv829764	chr3:156174824-156347774	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	13 gene(s)	inside rSNPs	diseases
3	nsv877683	chr3:156180366-156272351	Active TSS Weak transcription Enhancers Genic enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6802811	SSR3	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156252000-156270200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
2	chr3:156252200-156268600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr3:156253400-156268200	Weak transcription	Gastric	stomach
4	chr3:156253600-156268200	Weak transcription	Small Intestine	intestine
5	chr3:156253600-156271400	Weak transcription	Stomach Mucosa	stomach
6	chr3:156253800-156270800	Strong transcription	Primary monocytes fromperipheralblood	blood
7	chr3:156254200-156270200	Strong transcription	Monocytes-CD14+_RO01746	blood
8	chr3:156254600-156265400	Strong transcription	Liver	Liver
9	chr3:156255200-156268600	Strong transcription	Dnd41	blood
10	chr3:156255200-156270600	Strong transcription	A549	lung
11	chr3:156255600-156270800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
12	chr3:156255800-156270200	Strong transcription	HUES48 Cell Line	embryonic stem cell
13	chr3:156255800-156270200	Strong transcription	HUES6 Cell Line	embryonic stem cell
14	chr3:156255800-156270600	Strong transcription	Primary T cells fromperipheralblood	blood
15	chr3:156255800-156270800	Strong transcription	Fetal Intestine Large	intestine
16	chr3:156256000-156268600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr3:156256200-156270400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
18	chr3:156256200-156270400	Strong transcription	Primary hematopoietic stem cells	blood
19	chr3:156256400-156270400	Strong transcription	HUES64 Cell Line	embryonic stem cell
20	chr3:156256600-156267200	Strong transcription	Primary T helper cells fromperipheralblood	blood
21	chr3:156256600-156267400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
22	chr3:156256600-156270600	Strong transcription	Primary B cells from cord blood	blood
23	chr3:156256800-156266800	Strong transcription	Fetal Muscle Leg	muscle
24	chr3:156256800-156269400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr3:156256800-156269600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
26	chr3:156256800-156270600	Strong transcription	Primary neutrophils fromperipheralblood	blood
27	chr3:156256800-156271000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
28	chr3:156257000-156265600	Strong transcription	NHLF	lung
29	chr3:156257000-156269600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
30	chr3:156257000-156270400	Strong transcription	Rectal Mucosa Donor 29	rectum
31	chr3:156257000-156270600	Strong transcription	Fetal Thymus	thymus
32	chr3:156257000-156271000	Strong transcription	H1 Cell Line	embryonic stem cell
33	chr3:156257000-156271200	Strong transcription	Fetal Muscle Trunk	muscle
34	chr3:156257200-156269600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
35	chr3:156257200-156270200	Strong transcription	Hela-S3	cervix
36	chr3:156257600-156264800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr3:156257800-156266000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr3:156257800-156268600	Weak transcription	Fetal Intestine Small	intestine
39	chr3:156257800-156269200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr3:156257800-156270200	Weak transcription	Aorta	Aorta
41	chr3:156257800-156270600	Weak transcription	Fetal Brain Male	brain
42	chr3:156258400-156270400	Strong transcription	Rectal Mucosa Donor 31	rectum
43	chr3:156258600-156265600	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr3:156258800-156267200	Strong transcription	Primary T cells from cord blood	blood
45	chr3:156258800-156270400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr3:156258800-156270600	Strong transcription	Primary B cells from peripheral blood	blood
47	chr3:156259000-156265000	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
48	chr3:156259200-156267200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
49	chr3:156259200-156270800	Strong transcription	Placenta	Placenta
50	chr3:156259400-156266600	Strong transcription	Duodenum Mucosa	Duodenum

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