Variant report

Variant	rs9343867
Chromosome Location	chr6:79772353-79772354
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:79766914..79769296-chr6:79770475..79773266,2	K562	blood:
2	chr6:79764915..79767501-chr6:79771426..79773646,2	MCF-7	breast:
3	chr6:79772283..79777542-chr6:79785063..79789352,10	MCF-7	breast:
4	chr6:79760341..79764703-chr6:79769573..79773396,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000146247	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10806154	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11758432	0.95[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11964204	0.93[CHB][hapmap];0.92[JPT][hapmap];0.86[ASN][1000 genomes]
rs12192086	0.90[CEU][hapmap];0.93[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];1.00[TSI][hapmap];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1338023	0.90[CEU][hapmap];0.93[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2275290	0.88[ASW][hapmap];0.93[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];0.91[LWK][hapmap];0.89[MKK][hapmap];0.92[YRI][hapmap];0.86[ASN][1000 genomes]
rs2275291	1.00[CEU][hapmap];0.93[CHB][hapmap];0.92[JPT][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2321897	0.81[EUR][1000 genomes]
rs36017295	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3805746	0.88[ASW][hapmap];0.93[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];0.91[LWK][hapmap];0.89[MKK][hapmap];0.88[YRI][hapmap];0.85[ASN][1000 genomes]
rs3818839	0.95[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3929867	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62411261	0.87[ASN][1000 genomes]
rs6908105	0.82[ASW][hapmap];0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.80[MKK][hapmap];0.81[ASN][1000 genomes]
rs6940949	0.81[CEU][hapmap];0.93[CHB][hapmap];0.86[JPT][hapmap];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7740307	0.88[ASW][hapmap];0.93[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];0.89[LWK][hapmap];0.88[MKK][hapmap];0.85[ASN][1000 genomes]
rs7750836	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7756648	0.88[ASN][1000 genomes]
rs7776138	0.95[CEU][hapmap];0.85[CHB][hapmap];0.93[JPT][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9294130	0.81[JPT][hapmap];0.82[ASN][1000 genomes]
rs9341753	0.90[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap];0.81[EUR][1000 genomes]
rs9341760	0.88[ASN][1000 genomes]
rs9343849	0.90[ASN][1000 genomes]
rs9343853	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9343859	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9343865	0.90[CEU][hapmap];0.93[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];0.97[TSI][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9343869	0.90[CEU][hapmap];0.86[CHB][hapmap];0.93[JPT][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9343875	0.88[ASN][1000 genomes]
rs9343876	0.88[ASN][1000 genomes]
rs9350797	0.90[CEU][hapmap];0.93[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9350801	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9352668	0.93[CHB][hapmap];0.97[CHD][hapmap];0.93[JPT][hapmap]
rs9352672	0.83[ASN][1000 genomes]
rs9352685	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9352688	0.90[CEU][hapmap];0.93[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];0.97[TSI][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9352693	0.90[CEU][hapmap];0.86[CHB][hapmap];0.93[CHD][hapmap];0.94[GIH][hapmap];0.86[JPT][hapmap];0.97[TSI][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9352696	0.88[ASN][1000 genomes]
rs9352701	0.86[ASN][1000 genomes]
rs9359361	0.95[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9359366	0.87[ASN][1000 genomes]
rs9361459	0.93[CHB][hapmap];0.97[CHD][hapmap];0.93[JPT][hapmap]
rs9361473	0.93[CHB][hapmap];0.97[CHD][hapmap];0.94[GIH][hapmap];0.93[JPT][hapmap];0.85[ASN][1000 genomes]
rs9361478	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9361481	0.80[CHB][hapmap];0.80[JPT][hapmap];0.91[ASN][1000 genomes]
rs9361483	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9361497	0.86[ASN][1000 genomes]
rs9443623	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9443642	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9448594	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9448600	0.88[ASW][hapmap];0.93[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];0.91[LWK][hapmap];0.87[MKK][hapmap];0.86[ASN][1000 genomes]
rs9448601	0.86[ASN][1000 genomes]
rs9448602	0.84[ASN][1000 genomes]
rs9448616	0.90[CEU][hapmap];0.93[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9448647	0.86[ASN][1000 genomes]
rs956550	0.86[CHB][hapmap];0.90[CHD][hapmap];0.83[GIH][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs9688928	0.89[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	nsv830705	chr6:79659297-79829530	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	nsv518477	chr6:79700159-79850427	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:79687600-79775000	Strong transcription	Dnd41	blood
2	chr6:79704600-79786600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr6:79707400-79786000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr6:79707400-79786600	Weak transcription	Esophagus	oesophagus
5	chr6:79710800-79774600	Weak transcription	Psoas Muscle	Psoas
6	chr6:79730000-79786600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr6:79730600-79776600	Weak transcription	Aorta	Aorta
8	chr6:79732200-79774600	Weak transcription	Gastric	stomach
9	chr6:79736000-79773600	Weak transcription	Brain Hippocampus Middle	brain
10	chr6:79739000-79780000	Weak transcription	NHLF	lung
11	chr6:79742000-79785400	Weak transcription	HSMMtube	muscle
12	chr6:79742600-79773800	Strong transcription	Monocytes-CD14+_RO01746	blood
13	chr6:79748200-79774000	Weak transcription	Fetal Heart	heart
14	chr6:79748200-79774400	Weak transcription	Rectal Smooth Muscle	rectum
15	chr6:79751600-79774600	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr6:79755000-79785400	Weak transcription	Colonic Mucosa	Colon
17	chr6:79756600-79775000	Weak transcription	Pancreas	Pancrea
18	chr6:79759200-79774600	Weak transcription	Fetal Stomach	stomach
19	chr6:79759400-79773000	Strong transcription	HUES6 Cell Line	embryonic stem cell
20	chr6:79759600-79780200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr6:79760600-79785400	Weak transcription	Right Ventricle	heart
22	chr6:79760600-79786800	Weak transcription	Spleen	Spleen
23	chr6:79762200-79774200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr6:79763200-79776600	Weak transcription	Fetal Intestine Small	intestine
25	chr6:79763600-79774600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
26	chr6:79764000-79782200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr6:79765400-79773000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
28	chr6:79765600-79773600	Strong transcription	HUES64 Cell Line	embryonic stem cell
29	chr6:79766200-79773000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr6:79766200-79774200	Weak transcription	Brain Angular Gyrus	brain
31	chr6:79766400-79782000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
32	chr6:79766600-79774000	Weak transcription	Ovary	ovary
33	chr6:79766600-79775000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
34	chr6:79766600-79780600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr6:79767200-79774000	Weak transcription	Small Intestine	intestine
36	chr6:79768400-79772400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
37	chr6:79768600-79772400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
38	chr6:79768600-79773800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
39	chr6:79768600-79774000	Weak transcription	Brain Substantia Nigra	brain
40	chr6:79768600-79780600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
41	chr6:79768600-79786400	Weak transcription	Placenta Amnion	Placenta Amnion
42	chr6:79768800-79775800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
43	chr6:79769000-79774200	Weak transcription	Colon Smooth Muscle	Colon
44	chr6:79769200-79773200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
45	chr6:79769800-79785400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr6:79770400-79772600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
47	chr6:79770400-79772600	Weak transcription	Fetal Kidney	kidney
48	chr6:79770400-79773600	Weak transcription	Brain Inferior Temporal Lobe	brain
49	chr6:79770400-79773800	Weak transcription	Stomach Smooth Muscle	stomach
50	chr6:79770400-79774000	Weak transcription	Skeletal Muscle Female	skeletal muscle

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