Variant report

Variant	rs3770858
Chromosome Location	chr2:36696521-36696522
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs28622501	0.81[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs3770865	0.92[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3770866	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.94[GIH][hapmap];0.95[JPT][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3770872	1.00[CEU][hapmap];0.81[CHB][hapmap];0.86[JPT][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4670560	0.84[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.97[GIH][hapmap];0.91[JPT][hapmap];0.85[LWK][hapmap];0.90[MEX][hapmap];0.85[TSI][hapmap];0.82[AFR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6720730	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs756203	1.00[CEU][hapmap];0.81[CHB][hapmap];0.86[JPT][hapmap];0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs848534	0.90[CEU][hapmap]
rs848544	0.90[CEU][hapmap]
rs848549	0.85[CEU][hapmap]
rs848558	0.90[CEU][hapmap]
rs861051	0.85[CEU][hapmap]
rs940294	1.00[CEU][hapmap];0.81[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes]
rs940295	1.00[CEU][hapmap];0.86[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833803	chr2:36589065-36745779	Genic enhancers Enhancers Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv581468	chr2:36687111-36715689	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3770858	RASGRP3	cis	cerebellum	SCAN

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:36679800-36704000	Weak transcription	Fetal Brain Female	brain
2	chr2:36683800-36704000	Weak transcription	Pancreas	Pancrea
3	chr2:36687200-36704000	Weak transcription	Gastric	stomach
4	chr2:36687200-36712000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr2:36688400-36701600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr2:36688400-36704200	Weak transcription	Spleen	Spleen
7	chr2:36688400-36704400	Weak transcription	Colonic Mucosa	Colon
8	chr2:36688600-36704000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr2:36688600-36725600	Weak transcription	Small Intestine	intestine
10	chr2:36689000-36697400	Genic enhancers	HUVEC	blood vessel
11	chr2:36689000-36698200	Genic enhancers	Muscle Satellite Cultured Cells	--
12	chr2:36689000-36699000	Weak transcription	Primary T cells from cord blood	blood
13	chr2:36689000-36704000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr2:36689200-36698000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr2:36689200-36700400	Strong transcription	Placenta	Placenta
16	chr2:36689200-36700600	Strong transcription	HepG2	liver
17	chr2:36689200-36701000	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr2:36689200-36704000	Weak transcription	Brain Angular Gyrus	brain
19	chr2:36689200-36706400	Weak transcription	Thymus	Thymus
20	chr2:36689800-36698600	Strong transcription	Hela-S3	cervix
21	chr2:36690000-36699800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr2:36690200-36698200	Strong transcription	NHEK	skin
23	chr2:36690200-36702000	Weak transcription	Pancreatic Islets	Pancreatic Islet
24	chr2:36690400-36699400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr2:36691000-36696600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr2:36691000-36704600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr2:36691200-36701400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
28	chr2:36691600-36704000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
29	chr2:36692400-36697600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr2:36692400-36701600	Weak transcription	Fetal Intestine Small	intestine
31	chr2:36693000-36704400	Weak transcription	Colon Smooth Muscle	Colon
32	chr2:36693000-36704400	Weak transcription	Placenta Amnion	Placenta Amnion
33	chr2:36693800-36699000	Strong transcription	A549	lung
34	chr2:36694400-36697800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
35	chr2:36694400-36701800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr2:36694400-36702000	Weak transcription	Duodenum Mucosa	Duodenum
37	chr2:36694400-36704000	Weak transcription	Right Ventricle	heart
38	chr2:36694600-36697600	Weak transcription	HUES48 Cell Line	embryonic stem cell
39	chr2:36694800-36697000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr2:36694800-36704200	Weak transcription	Fetal Brain Male	brain
41	chr2:36695000-36696600	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr2:36695000-36696600	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr2:36695000-36697200	Genic enhancers	Osteobl	bone
44	chr2:36695000-36697600	Genic enhancers	NH-A	brain
45	chr2:36695200-36696600	Enhancers	Psoas Muscle	Psoas
46	chr2:36695200-36696600	Enhancers	HMEC	breast
47	chr2:36695200-36696800	Genic enhancers	NHLF	lung
48	chr2:36695200-36697200	Enhancers	Fetal Muscle Leg	muscle
49	chr2:36695200-36697200	Genic enhancers	NHDF-Ad	bronchial
50	chr2:36695200-36697400	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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