Variant report

Variant	rs6808837
Chromosome Location	chr3:141217954-141217955
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:141217233..141220189-chr3:141223393..141226923,6	K562	blood:
2	chr3:141215787..141218632-chr3:141221462..141225084,3	K562	blood:
3	chr3:141217049..141220342-chr3:141227507..141230156,3	K562	blood:
4	chr3:141216419..141218648-chr3:141218821..141221433,4	K562	blood:
5	chr3:141217331..141219301-chr3:141222092..141224227,2	MCF-7	breast:
6	chr3:141217065..141219629-chr3:141222334..141224305,2	MCF-7	breast:
7	chr3:141173524..141175043-chr3:141217283..141220078,2	MCF-7	breast:
8	chr3:141212359..141214375-chr3:141215681..141218041,2	K562	blood:

No data

Extended variants
information (count: 50 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs11711375	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11916906	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11917587	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13062809	0.82[EUR][1000 genomes]
rs13069717	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1366042	0.96[CEU][hapmap];0.91[MEX][hapmap];0.95[TSI][hapmap];0.91[EUR][1000 genomes]
rs1493209	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1582875	0.96[CEU][hapmap];0.90[EUR][1000 genomes]
rs16851435	0.87[CHD][hapmap];0.89[JPT][hapmap]
rs16851438	0.94[JPT][hapmap]
rs16851441	0.88[JPT][hapmap]
rs16851483	0.88[JPT][hapmap]
rs1863867	0.85[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs2035935	0.88[JPT][hapmap]
rs2035936	0.82[JPT][hapmap]
rs2042864	0.96[CEU][hapmap];0.83[EUR][1000 genomes]
rs2172471	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2312193	0.92[CEU][hapmap];0.88[JPT][hapmap];0.91[MEX][hapmap];0.87[EUR][1000 genomes]
rs2639997	0.88[JPT][hapmap]
rs2639998	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2640017	0.88[JPT][hapmap]
rs295299	0.88[JPT][hapmap]
rs295300	0.81[CHB][hapmap];0.92[CHD][hapmap];0.88[JPT][hapmap]
rs295320	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];0.91[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs295323	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.97[TSI][hapmap];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35711802	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3732869	0.88[JPT][hapmap]
rs3806646	1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3821709	0.88[JPT][hapmap]
rs3821710	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3821712	1.00[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.97[TSI][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4683610	0.88[JPT][hapmap]
rs6440013	0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6440015	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6763498	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6767158	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6776003	0.89[CEU][hapmap];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6785874	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6795168	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6800122	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7612543	0.82[TSI][hapmap]
rs7627807	0.88[JPT][hapmap]
rs7632308	1.00[CEU][hapmap];0.98[GIH][hapmap];0.91[MEX][hapmap];0.97[TSI][hapmap];0.92[EUR][1000 genomes]
rs7643837	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9289631	0.83[EUR][1000 genomes]
rs9813177	1.00[CEU][hapmap];0.98[GIH][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9850416	0.82[TSI][hapmap]
rs9851256	0.87[CEU][hapmap]
rs9878347	0.94[JPT][hapmap]
rs9879503	0.94[JPT][hapmap]

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs6808837	RASA2	Cis_1M	lymphoblastoid	RTeQTL
rs6808837	RASA2	cis	parietal	SCAN
rs6808837	RASA2	cis	cerebellum	SCAN
rs6808837	GK5	cis	parietal	SCAN
rs6808837	ATP1B3	cis	cerebellum	SCAN
rs6808837	ZBTB38	cis	cerebellum	SCAN

Chromatin state (count:79 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:141207000-141235800	Weak transcription	Gastric	stomach
2	chr3:141207000-141255000	Weak transcription	Aorta	Aorta
3	chr3:141207400-141231400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr3:141207800-141233200	Weak transcription	Fetal Intestine Large	intestine
5	chr3:141207800-141235600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr3:141208400-141231200	Weak transcription	Fetal Lung	lung
7	chr3:141208400-141232600	Weak transcription	NH-A	brain
8	chr3:141209600-141232400	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr3:141209800-141234200	Weak transcription	Fetal Muscle Leg	muscle
10	chr3:141210000-141221000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr3:141210200-141218000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr3:141210200-141224200	Weak transcription	K562	blood
13	chr3:141210400-141248000	Weak transcription	NHLF	lung
14	chr3:141211000-141229400	Weak transcription	NHDF-Ad	bronchial
15	chr3:141211200-141220000	Weak transcription	HepG2	liver
16	chr3:141211400-141235400	Weak transcription	A549	lung
17	chr3:141211600-141220200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr3:141215000-141221000	Weak transcription	HSMM	muscle
19	chr3:141215000-141221600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr3:141216000-141239600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr3:141216400-141218000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr3:141216600-141218000	Enhancers	Skeletal Muscle Male	skeletal muscle
23	chr3:141217000-141218000	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
24	chr3:141217000-141218800	Flanking Active TSS	Dnd41	blood
25	chr3:141217000-141219000	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
26	chr3:141217200-141218400	Flanking Active TSS	Primary B cells from cord blood	blood
27	chr3:141217200-141219000	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
28	chr3:141217200-141219000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
29	chr3:141217200-141219200	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
30	chr3:141217200-141219200	Enhancers	Small Intestine	intestine
31	chr3:141217200-141220400	Enhancers	Primary B cells from peripheral blood	blood
32	chr3:141217200-141220400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
33	chr3:141217200-141232000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr3:141217400-141218000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr3:141217400-141218000	Enhancers	Brain Hippocampus Middle	brain
36	chr3:141217400-141218000	Enhancers	Duodenum Mucosa	Duodenum
37	chr3:141217400-141218000	Enhancers	Lung	lung
38	chr3:141217400-141218000	Enhancers	Spleen	Spleen
39	chr3:141217400-141218200	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
40	chr3:141217400-141218400	Flanking Active TSS	Primary hematopoietic stem cells	blood
41	chr3:141217400-141218400	Enhancers	Rectal Mucosa Donor 31	rectum
42	chr3:141217400-141218600	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
43	chr3:141217400-141218800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
44	chr3:141217400-141218800	Enhancers	Left Ventricle	heart
45	chr3:141217400-141219000	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
46	chr3:141217400-141219200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr3:141217400-141219600	Flanking Active TSS	Primary T cells from cord blood	blood
48	chr3:141217600-141218000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr3:141217600-141218000	Flanking Active TSS	Adipose Nuclei	Adipose
50	chr3:141217600-141218000	Enhancers	HUVEC	blood vessel

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