Variant report

Variant	rs7742800
Chromosome Location	chr6:99381645-99381646
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:99376269..99378071-chr6:99381004..99383818,2	K562	blood:
2	chr6:99381014..99384721-chr6:99391526..99396227,6	K562	blood:
3	chr6:99379637..99382466-chr6:99388318..99389864,2	K562	blood:
4	chr6:99373617..99378071-chr6:99378996..99382504,4	K562	blood:

Variant related genes	Relation type
ENSG00000112234	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10484609	0.81[CEU][hapmap]
rs12110701	0.82[CEU][hapmap]
rs12110702	0.83[CEU][hapmap]
rs12173555	0.83[AMR][1000 genomes]
rs1474606	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1884185	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2016597	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2300062	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2300063	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2388750	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2572095	1.00[CEU][hapmap];0.81[CHB][hapmap];0.88[JPT][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2572099	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2572109	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2747731	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2747733	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2747736	0.80[ASN][1000 genomes]
rs28488166	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3756986	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3823035	0.81[CEU][hapmap]
rs55923681	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs67597785	0.84[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs6924301	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6928645	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73503620	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73505759	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7450561	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9321243	0.81[CEU][hapmap]
rs9372960	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9372961	0.94[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9372982	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9372983	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9375721	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9375728	1.00[CEU][hapmap]
rs9375729	1.00[CEU][hapmap];0.83[YRI][hapmap]
rs9375730	0.83[CEU][hapmap]
rs9375733	0.83[CEU][hapmap]
rs9375807	1.00[CEU][hapmap];0.82[YRI][hapmap];0.84[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs9385544	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9388785	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9388809	0.81[CEU][hapmap]
rs9388814	0.83[CEU][hapmap]
rs9388895	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap]
rs9388899	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9388909	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9402235	0.83[CEU][hapmap]
rs9402255	0.81[CEU][hapmap]
rs9402350	0.80[ASN][1000 genomes]

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	nsv604253	chr6:98857397-99630038	Flanking Bivalent TSS/Enh Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv1031376	chr6:99337783-99394171	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv538386	chr6:99337783-99394171	Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:99297000-99386000	Weak transcription	Fetal Brain Male	brain
2	chr6:99304600-99387200	Weak transcription	A549	lung
3	chr6:99309600-99383400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr6:99319400-99393600	Weak transcription	NHLF	lung
5	chr6:99320400-99393600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr6:99328800-99384800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
7	chr6:99347600-99392800	Weak transcription	Hela-S3	cervix
8	chr6:99349400-99384400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr6:99349400-99392600	Weak transcription	Pancreas	Pancrea
10	chr6:99350600-99385600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr6:99353400-99387200	Weak transcription	HMEC	breast
12	chr6:99353600-99382400	Weak transcription	Stomach Smooth Muscle	stomach
13	chr6:99354000-99389200	Weak transcription	HepG2	liver
14	chr6:99359400-99394600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr6:99367600-99381800	Weak transcription	Brain Cingulate Gyrus	brain
16	chr6:99368400-99394800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr6:99369200-99383400	Weak transcription	Fetal Intestine Small	intestine
18	chr6:99369600-99384800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr6:99370600-99387200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr6:99371600-99382600	Weak transcription	Esophagus	oesophagus
21	chr6:99372000-99394400	Weak transcription	NH-A	brain
22	chr6:99372400-99384800	Weak transcription	Spleen	Spleen
23	chr6:99372800-99383000	Weak transcription	Brain Germinal Matrix	brain
24	chr6:99372800-99383400	Weak transcription	Fetal Stomach	stomach
25	chr6:99372800-99393600	Weak transcription	Thymus	Thymus
26	chr6:99373000-99392400	Weak transcription	Stomach Mucosa	stomach
27	chr6:99373200-99384200	Weak transcription	Fetal Brain Female	brain
28	chr6:99374800-99387400	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr6:99374800-99388200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr6:99374800-99393600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
31	chr6:99374800-99393800	Weak transcription	HSMM	muscle
32	chr6:99375000-99382000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
33	chr6:99375000-99386800	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr6:99375000-99387000	Weak transcription	Duodenum Mucosa	Duodenum
35	chr6:99375000-99387200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr6:99375000-99390200	Weak transcription	K562	blood
37	chr6:99375000-99394400	Weak transcription	Placenta Amnion	Placenta Amnion
38	chr6:99375200-99386200	Weak transcription	Fetal Thymus	thymus
39	chr6:99375600-99382000	Weak transcription	Primary T cells fromperipheralblood	blood
40	chr6:99375600-99382200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr6:99375600-99385400	Weak transcription	Dnd41	blood
42	chr6:99375600-99386200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr6:99375600-99387000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr6:99375600-99387200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr6:99375600-99387200	Weak transcription	Duodenum Smooth Muscle	Duodenum
46	chr6:99375600-99394600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
47	chr6:99376400-99394800	Weak transcription	Left Ventricle	heart
48	chr6:99377800-99392600	Weak transcription	Aorta	Aorta
49	chr6:99378000-99382800	Weak transcription	Fetal Heart	heart
50	chr6:99378200-99384600	Weak transcription	Primary T cells from cord blood	blood

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