Variant report

Variant	rs13402710
Chromosome Location	chr2:152680343-152680344
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10169098	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10172958	0.89[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.94[YRI][hapmap];0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10173570	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10174624	0.85[ASN][1000 genomes]
rs10179630	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10186879	0.96[ASN][1000 genomes]
rs10190733	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10198509	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10202662	0.86[CEU][hapmap]
rs10204195	0.92[ASN][1000 genomes]
rs10210114	0.96[ASN][1000 genomes]
rs10497093	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.94[YRI][hapmap];0.85[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11692567	0.86[CEU][hapmap];0.81[ASN][1000 genomes]
rs12328396	0.89[CEU][hapmap];0.88[ASN][1000 genomes]
rs12693126	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12992632	0.89[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.94[YRI][hapmap];0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12994595	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs13025954	0.86[CEU][hapmap]
rs13384856	0.89[CEU][hapmap];0.88[ASN][1000 genomes]
rs13386934	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13395294	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13396041	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13404687	0.98[EUR][1000 genomes]
rs13408513	0.92[ASN][1000 genomes]
rs13414130	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13416266	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13421183	0.88[ASN][1000 genomes]
rs13427102	0.86[CEU][hapmap];0.81[ASN][1000 genomes]
rs13428623	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16830358	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16830400	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs2030589	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.93[YRI][hapmap];0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2030590	0.85[CEU][hapmap];0.85[JPT][hapmap];0.93[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34629725	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36111287	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36141926	0.92[ASN][1000 genomes]
rs3768656	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.94[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4436952	0.96[ASN][1000 genomes]
rs4503987	0.86[CEU][hapmap]
rs4525690	0.86[CEU][hapmap];0.85[JPT][hapmap];0.92[ASN][1000 genomes]
rs62174407	0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62174408	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62174411	1.00[ASN][1000 genomes]
rs6433628	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6729878	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.94[YRI][hapmap];0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6750638	0.96[ASN][1000 genomes]
rs6754783	0.96[ASN][1000 genomes]
rs7560854	0.89[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7565109	0.96[ASN][1000 genomes]
rs7591340	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7591363	0.82[CEU][hapmap]

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	nsv1005746	chr2:152361972-153059840	Strong transcription Weak transcription Bivalent/Poised TSS Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv535984	chr2:152361972-153059840	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	esv3693430	chr2:152648677-152681200	ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:152634000-152683400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr2:152654200-152683400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr2:152658000-152681600	Weak transcription	Stomach Mucosa	stomach
4	chr2:152659400-152683000	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr2:152661400-152683000	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr2:152662200-152681000	Weak transcription	Colonic Mucosa	Colon
7	chr2:152662800-152683000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr2:152663400-152682200	Weak transcription	HSMMtube	muscle
9	chr2:152663400-152683000	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr2:152667800-152682400	Weak transcription	Fetal Brain Male	brain
11	chr2:152668400-152683200	Weak transcription	Small Intestine	intestine
12	chr2:152669800-152683200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr2:152670200-152683200	Weak transcription	Fetal Kidney	kidney
14	chr2:152670400-152681000	Weak transcription	Stomach Smooth Muscle	stomach
15	chr2:152670400-152681400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr2:152670600-152680400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr2:152670600-152682800	Weak transcription	HMEC	breast
18	chr2:152670800-152682800	Weak transcription	Hela-S3	cervix
19	chr2:152671000-152681200	Weak transcription	Liver	Liver
20	chr2:152671000-152682800	Weak transcription	NH-A	brain
21	chr2:152671000-152683000	Weak transcription	Primary neutrophils fromperipheralblood	blood
22	chr2:152671200-152681200	Weak transcription	Fetal Lung	lung
23	chr2:152671400-152682200	Weak transcription	Fetal Brain Female	brain
24	chr2:152672200-152683400	Weak transcription	Fetal Muscle Trunk	muscle
25	chr2:152672400-152683200	Weak transcription	Placenta	Placenta
26	chr2:152672600-152682800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr2:152672600-152683200	Weak transcription	Fetal Thymus	thymus
28	chr2:152672800-152681200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr2:152672800-152681200	Weak transcription	Dnd41	blood
30	chr2:152672800-152682600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr2:152672800-152682800	Weak transcription	Rectal Mucosa Donor 29	rectum
32	chr2:152672800-152683200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr2:152672800-152683200	Weak transcription	Thymus	Thymus
34	chr2:152672800-152683400	Weak transcription	Fetal Stomach	stomach
35	chr2:152673200-152683200	Weak transcription	HSMM	muscle
36	chr2:152673400-152681200	Weak transcription	Aorta	Aorta
37	chr2:152673400-152683200	Weak transcription	Fetal Muscle Leg	muscle
38	chr2:152673600-152682400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr2:152673800-152682800	Weak transcription	Fetal Intestine Large	intestine
40	chr2:152673800-152683200	Weak transcription	Rectal Mucosa Donor 31	rectum
41	chr2:152674000-152681600	Weak transcription	Primary B cells from cord blood	blood
42	chr2:152674400-152682400	Weak transcription	Primary B cells from peripheral blood	blood
43	chr2:152675000-152681400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr2:152675200-152682000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr2:152675200-152682200	Weak transcription	Monocytes-CD14+_RO01746	blood
46	chr2:152675200-152682800	Weak transcription	Primary hematopoietic stem cells	blood
47	chr2:152675200-152683000	Weak transcription	Fetal Intestine Small	intestine
48	chr2:152675200-152683200	Weak transcription	Ovary	ovary
49	chr2:152675200-152684000	Weak transcription	Esophagus	oesophagus
50	chr2:152675200-152684000	Weak transcription	Lung	lung

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