Variant report

Variant	rs6924682
Chromosome Location	chr6:34290533-34290534
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:34289970..34292350-chr6:34305042..34307455,2	MCF-7	breast:
2	chr6:34266980..34269551-chr6:34289025..34290920,2	K562	blood:
3	chr6:34261035..34263371-chr6:34289848..34291371,2	MCF-7	breast:

Extended variants
information (count: 48 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs16885998	0.95[CHB][hapmap];0.89[CHD][hapmap];0.93[GIH][hapmap];0.86[JPT][hapmap];0.87[MEX][hapmap];0.92[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs16889706	0.91[CHB][hapmap];0.93[CHD][hapmap];0.86[GIH][hapmap];0.95[JPT][hapmap];0.87[MEX][hapmap];0.84[ASN][1000 genomes]
rs16889714	0.85[CHB][hapmap];0.90[JPT][hapmap];0.80[ASN][1000 genomes]
rs169584	0.84[ASN][1000 genomes]
rs206919	0.95[CHD][hapmap];0.86[JPT][hapmap]
rs206921	0.83[CHB][hapmap];0.95[CHD][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs206936	0.83[CHB][hapmap];0.93[CHD][hapmap];0.91[JPT][hapmap];0.83[ASN][1000 genomes]
rs206941	0.83[CHB][hapmap];0.81[JPT][hapmap]
rs206942	0.83[CHB][hapmap];0.91[CHD][hapmap];0.81[JPT][hapmap]
rs2071928	0.94[AMR][1000 genomes]
rs2237098	0.84[ASN][1000 genomes]
rs28847046	0.80[ASN][1000 genomes]
rs34384951	0.94[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs3778077	0.83[CHB][hapmap];0.85[CHD][hapmap];0.93[GIH][hapmap];0.95[JPT][hapmap];0.83[MEX][hapmap];0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs3798556	0.85[ASN][1000 genomes]
rs3798560	0.95[CHD][hapmap];0.86[JPT][hapmap]
rs3798562	0.95[CHB][hapmap];0.89[CHD][hapmap];0.90[GIH][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3798564	0.86[CHB][hapmap];0.90[JPT][hapmap];0.89[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs414739	0.86[JPT][hapmap]
rs458576	0.80[ASN][1000 genomes]
rs464553	0.93[CHD][hapmap];0.86[JPT][hapmap];0.80[ASN][1000 genomes]
rs4711390	0.95[CHB][hapmap];0.93[CHD][hapmap];0.93[GIH][hapmap];0.95[JPT][hapmap];0.87[MEX][hapmap];0.94[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4713770	0.85[JPT][hapmap];0.94[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs4713772	0.91[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4713773	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4713774	0.95[CHB][hapmap];0.95[JPT][hapmap];0.89[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs4713775	0.81[ASN][1000 genomes]
rs4713776	0.81[ASN][1000 genomes]
rs4713777	0.93[ASW][hapmap];1.00[CEU][hapmap];0.91[CHB][hapmap];0.93[CHD][hapmap];0.93[GIH][hapmap];0.95[JPT][hapmap];0.96[LWK][hapmap];0.96[MEX][hapmap];0.98[MKK][hapmap];0.82[YRI][hapmap];0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs568502	0.83[CHB][hapmap];0.81[JPT][hapmap]
rs57622072	0.84[ASN][1000 genomes]
rs58648597	0.89[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs59310759	0.89[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs60100381	0.86[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs611928	0.83[CHB][hapmap];0.93[CHD][hapmap];0.81[JPT][hapmap]
rs62399909	0.89[ASN][1000 genomes]
rs6912971	0.93[CHD][hapmap];0.86[JPT][hapmap]
rs6925243	0.87[CHB][hapmap];0.89[CHD][hapmap];0.80[GIH][hapmap];0.95[JPT][hapmap]
rs6930978	0.83[CHB][hapmap];0.93[CHD][hapmap];0.81[JPT][hapmap]
rs6935129	0.80[ASN][1000 genomes]
rs7752035	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7767431	0.94[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7775635	0.82[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	esv1798756	chr6:34203406-34319041	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	esv1798835	chr6:34204183-34319041	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	esv1792088	chr6:34204285-34318837	Genic enhancers Weak transcription Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
4	esv1793127	chr6:34204285-34319041	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
5	esv1794528	chr6:34267024-34308816	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6924682	RPS10	cis	lymphoblastoid	seeQTL

Chromatin state (count:93 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:34261800-34330800	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr6:34262000-34292800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr6:34262200-34295400	Weak transcription	Duodenum Mucosa	Duodenum
4	chr6:34262200-34301200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr6:34262800-34290800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr6:34264000-34299000	Weak transcription	Dnd41	blood
7	chr6:34274400-34306400	Weak transcription	Brain Germinal Matrix	brain
8	chr6:34274400-34309000	Weak transcription	NHDF-Ad	bronchial
9	chr6:34275200-34298000	Weak transcription	Fetal Muscle Trunk	muscle
10	chr6:34275800-34299600	Weak transcription	Lung	lung
11	chr6:34280800-34295600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr6:34284000-34301600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr6:34284000-34308200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr6:34284600-34293000	Weak transcription	Fetal Brain Female	brain
15	chr6:34284600-34300400	Weak transcription	Primary T cells from cord blood	blood
16	chr6:34284800-34292600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr6:34284800-34299000	Weak transcription	Primary neutrophils fromperipheralblood	blood
18	chr6:34284800-34310800	Weak transcription	Primary T cells fromperipheralblood	blood
19	chr6:34285000-34305600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
20	chr6:34285200-34330600	Weak transcription	Thymus	Thymus
21	chr6:34285400-34292400	Weak transcription	HSMMtube	muscle
22	chr6:34285400-34299200	Weak transcription	HSMM	muscle
23	chr6:34285400-34305200	Weak transcription	Primary T helper cells fromperipheralblood	blood
24	chr6:34285400-34305400	Weak transcription	Primary T helper cells PMA-I stimulated	--
25	chr6:34285400-34307800	Weak transcription	Liver	Liver
26	chr6:34285800-34308800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
27	chr6:34285800-34326600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
28	chr6:34286000-34292400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
29	chr6:34286000-34292800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr6:34286000-34308200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
31	chr6:34286400-34292600	Weak transcription	Rectal Smooth Muscle	rectum
32	chr6:34286600-34302800	Weak transcription	Osteobl	bone
33	chr6:34286800-34292200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr6:34287000-34298000	Weak transcription	Primary monocytes fromperipheralblood	blood
35	chr6:34287000-34299400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr6:34287000-34301200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr6:34287000-34305000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr6:34287200-34290600	Weak transcription	Small Intestine	intestine
39	chr6:34287200-34290600	Weak transcription	Monocytes-CD14+_RO01746	blood
40	chr6:34287200-34291800	Weak transcription	Right Ventricle	heart
41	chr6:34287200-34292400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
42	chr6:34287200-34292600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr6:34287200-34292600	Weak transcription	Adipose Nuclei	Adipose
44	chr6:34287200-34292600	Weak transcription	Aorta	Aorta
45	chr6:34287200-34299000	Weak transcription	Primary B cells from cord blood	blood
46	chr6:34287200-34299400	Weak transcription	Primary hematopoietic stem cells	blood
47	chr6:34287400-34292200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
48	chr6:34287400-34292400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr6:34287400-34292400	Weak transcription	Fetal Stomach	stomach
50	chr6:34287400-34292600	Weak transcription	Brain Anterior Caudate	brain

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