Variant report

Variant	rs210902
Chromosome Location	chr6:11725469-11725470
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:11723926..11725711-chr6:11733477..11735503,2	MCF-7	breast:

Extended variants
information (count: 45 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs169791	0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs172405	0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs2076184	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs210892	0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs210895	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs210898	0.90[ASN][1000 genomes]
rs210901	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs210903	0.83[AMR][1000 genomes]
rs210904	0.82[ASN][1000 genomes]
rs210906	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs210924	0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs210930	0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs2235398	0.95[JPT][hapmap]
rs2235399	0.95[JPT][hapmap]
rs2235400	0.95[JPT][hapmap]
rs2235401	0.95[JPT][hapmap]
rs2235402	0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs2235403	0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs2235405	0.86[ASN][1000 genomes]
rs2235407	0.86[ASN][1000 genomes]
rs2235409	0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs2235413	0.81[JPT][hapmap]
rs2254655	0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs2254668	0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs2281126	0.86[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2294417	0.90[JPT][hapmap]
rs2294423	0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs2294424	0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs35340830	0.82[ASN][1000 genomes]
rs4713831	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6927223	0.95[JPT][hapmap]
rs6933892	0.81[CEU][hapmap]
rs6934084	0.81[CEU][hapmap]
rs849013	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs932343	0.81[JPT][hapmap]
rs932344	0.81[CEU][hapmap]
rs9368864	0.95[JPT][hapmap]
rs9380504	0.86[ASN][1000 genomes]
rs9394268	0.90[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9469986	0.95[JPT][hapmap];0.86[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	esv2758036	chr6:11679753-11822351	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	esv2759407	chr6:11679753-11822351	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv428470	chr6:11686198-11747850	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv462637	chr6:11710554-11733777	Weak transcription Strong transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv600990	chr6:11710554-11733777	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs210902	C6orf105	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11710800-11731000	Weak transcription	Gastric	stomach
2	chr6:11711200-11731000	Weak transcription	Fetal Intestine Small	intestine
3	chr6:11711600-11731800	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr6:11713600-11727600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr6:11714600-11731600	Weak transcription	Small Intestine	intestine
6	chr6:11715200-11728000	Weak transcription	Fetal Thymus	thymus
7	chr6:11719400-11762200	Weak transcription	Colonic Mucosa	Colon
8	chr6:11719600-11732400	Weak transcription	NHEK	skin
9	chr6:11722600-11727000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr6:11722600-11728200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr6:11723200-11731600	Strong transcription	HSMM	muscle
12	chr6:11723200-11732400	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr6:11723200-11738400	Weak transcription	HMEC	breast
14	chr6:11723600-11726400	Enhancers	Primary T helper cells fromperipheralblood	blood
15	chr6:11723600-11744200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr6:11723800-11726200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr6:11723800-11730600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr6:11723800-11731000	Weak transcription	Duodenum Mucosa	Duodenum
19	chr6:11724400-11725800	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
20	chr6:11724400-11726800	Enhancers	Primary T killer memory cells from peripheral blood	blood
21	chr6:11724600-11726200	Weak transcription	Primary T cells fromperipheralblood	blood
22	chr6:11724600-11726600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
23	chr6:11724800-11726600	Enhancers	Primary T helper naive cells from peripheral blood	blood
24	chr6:11724800-11728600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr6:11725000-11725600	Weak transcription	Primary T cells from cord blood	blood
26	chr6:11725000-11726400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
27	chr6:11725000-11726400	Weak transcription	HSMMtube	muscle
28	chr6:11725000-11727000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
29	chr6:11725200-11748600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr6:11725400-11725800	Enhancers	Primary T helper cells PMA-I stimulated	--
31	chr6:11725400-11726000	Enhancers	GM12878-XiMat	blood
32	chr6:11725400-11726400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
33	chr6:11725400-11726400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
34	chr6:11725400-11731000	Weak transcription	Rectal Mucosa Donor 31	rectum

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