Variant report

Variant	rs7588135
Chromosome Location	chr2:180003200-180003201
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10172589	0.95[ASN][1000 genomes]
rs10173853	1.00[AMR][1000 genomes]
rs10176828	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs10178559	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10186707	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10205588	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10207754	1.00[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs10208882	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs10209875	1.00[CHB][hapmap]
rs10221811	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12328593	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12329222	0.81[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs12611473	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12612427	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12613089	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12616452	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12617364	1.00[AMR][1000 genomes]
rs12618724	0.81[ASN][1000 genomes]
rs12622434	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs13382573	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13383806	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs13387502	0.81[ASN][1000 genomes]
rs13391187	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs13394908	1.00[AMR][1000 genomes]
rs13395559	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs13408774	1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs13412820	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs13417112	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13422693	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13424092	1.00[CHB][hapmap]
rs13429191	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs16866630	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16866647	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs28362046	0.95[ASN][1000 genomes]
rs28508327	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs35041512	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6734127	1.00[AMR][1000 genomes]
rs7578417	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs7581898	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7601965	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7608106	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9288024	1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949133	chr2:179711376-180124327	Flanking Active TSS ZNF genes & repeats Active TSS Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
2	nsv1004693	chr2:179933683-180265288	Weak transcription Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
3	nsv834471	chr2:179974303-180123027	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	diseases
4	nsv3060	chr2:179990791-180035511	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:179967800-180004400	Weak transcription	Esophagus	oesophagus
2	chr2:179970000-180004400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr2:179971600-180012600	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr2:179972000-180005200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr2:179972000-180005200	Weak transcription	Rectal Smooth Muscle	rectum
6	chr2:179972800-180014600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr2:179973000-180007200	Weak transcription	GM12878-XiMat	blood
8	chr2:179973400-180004400	Weak transcription	Pancreas	Pancrea
9	chr2:179973400-180006800	Weak transcription	Small Intestine	intestine
10	chr2:179973400-180012600	Weak transcription	NHLF	lung
11	chr2:179973400-180030200	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr2:179975800-180047600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr2:179976000-180004400	Weak transcription	Aorta	Aorta
14	chr2:179977400-180004400	Weak transcription	Lung	lung
15	chr2:179977400-180005000	Weak transcription	Fetal Kidney	kidney
16	chr2:179977400-180049000	Weak transcription	HSMMtube	muscle
17	chr2:179978200-180014600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr2:179978800-180004400	Weak transcription	Spleen	Spleen
19	chr2:179980000-180038800	Weak transcription	HMEC	breast
20	chr2:179980000-180056800	Weak transcription	HSMM	muscle
21	chr2:179980400-180005200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
22	chr2:179980400-180005600	Weak transcription	Primary T cells fromperipheralblood	blood
23	chr2:179981400-180005000	Weak transcription	Ovary	ovary
24	chr2:179981400-180016800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr2:179981600-180004400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr2:179981600-180005000	Weak transcription	Duodenum Mucosa	Duodenum
27	chr2:179981800-180005400	Weak transcription	Osteobl	bone
28	chr2:179982400-180004400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr2:179982800-180004400	Weak transcription	Primary neutrophils fromperipheralblood	blood
30	chr2:179982800-180004600	Weak transcription	Fetal Brain Male	brain
31	chr2:179983600-180005000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
32	chr2:179984600-180004600	Weak transcription	HUVEC	blood vessel
33	chr2:179984800-180004200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr2:179984800-180005200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr2:179985000-180025600	Weak transcription	Fetal Intestine Small	intestine
36	chr2:179985200-180004400	Weak transcription	Fetal Muscle Trunk	muscle
37	chr2:179985200-180004400	Weak transcription	Fetal Stomach	stomach
38	chr2:179985400-180004000	Weak transcription	Dnd41	blood
39	chr2:179985600-180005800	Weak transcription	Skeletal Muscle Female	skeletal muscle
40	chr2:179985800-180004000	Weak transcription	Fetal Intestine Large	intestine
41	chr2:179985800-180004400	Weak transcription	Fetal Brain Female	brain
42	chr2:179985800-180004400	Weak transcription	Left Ventricle	heart
43	chr2:179985800-180005800	Weak transcription	Skeletal Muscle Male	skeletal muscle
44	chr2:179985800-180010200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr2:179986000-180004400	Weak transcription	Liver	Liver
46	chr2:179986200-180006000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
47	chr2:179986600-180030400	Weak transcription	HUES64 Cell Line	embryonic stem cell
48	chr2:179988600-180003400	Weak transcription	Fetal Muscle Leg	muscle
49	chr2:179990000-180004400	Weak transcription	Muscle Satellite Cultured Cells	--
50	chr2:179990200-180004000	Weak transcription	Fetal Thymus	thymus

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