Variant report

Variant	rs6454095
Chromosome Location	chr6:79766374-79766375
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:79764144..79766429-chr6:79768254..79771136,3	K562	blood:
2	chr6:79757654..79762707-chr6:79762801..79766405,4	K562	blood:
3	chr6:79764915..79767501-chr6:79771426..79773646,2	MCF-7	breast:
4	chr6:79754347..79756749-chr6:79764900..79766889,2	K562	blood:

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs11967173	0.87[EUR][1000 genomes]
rs12529043	1.00[CEU][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs1413967	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1415861	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes]
rs1415862	0.87[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1415863	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1538234	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1890230	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28811946	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4547969	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4706748	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4706749	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56118785	0.97[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs58047896	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6454094	0.86[ASW][hapmap];0.86[CEU][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6900076	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6906655	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6916942	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6918296	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6923327	1.00[CEU][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6929315	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6940635	1.00[CEU][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6941107	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73764089	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7739298	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7747479	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7756903	0.87[CEU][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7758407	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7775074	1.00[CEU][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7776322	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9343862	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9361485	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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:123 , 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	chr6:79708800-79769600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr6:79710800-79774600	Weak transcription	Psoas Muscle	Psoas
7	chr6:79727000-79767800	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr6:79730000-79786600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr6:79730600-79776600	Weak transcription	Aorta	Aorta
10	chr6:79732200-79774600	Weak transcription	Gastric	stomach
11	chr6:79734000-79768000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr6:79736000-79773600	Weak transcription	Brain Hippocampus Middle	brain
13	chr6:79739000-79780000	Weak transcription	NHLF	lung
14	chr6:79739400-79769400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr6:79742000-79785400	Weak transcription	HSMMtube	muscle
16	chr6:79742600-79773800	Strong transcription	Monocytes-CD14+_RO01746	blood
17	chr6:79743400-79769600	Weak transcription	NHEK	skin
18	chr6:79748200-79774000	Weak transcription	Fetal Heart	heart
19	chr6:79748200-79774400	Weak transcription	Rectal Smooth Muscle	rectum
20	chr6:79751600-79774600	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr6:79755000-79785400	Weak transcription	Colonic Mucosa	Colon
22	chr6:79755600-79771000	Strong transcription	Primary monocytes fromperipheralblood	blood
23	chr6:79756600-79775000	Weak transcription	Pancreas	Pancrea
24	chr6:79757600-79767600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
25	chr6:79758400-79770800	Strong transcription	Fetal Thymus	thymus
26	chr6:79759200-79769000	Strong transcription	HSMM	muscle
27	chr6:79759200-79774600	Weak transcription	Fetal Stomach	stomach
28	chr6:79759400-79773000	Strong transcription	HUES6 Cell Line	embryonic stem cell
29	chr6:79759600-79771000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
30	chr6:79759600-79780200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr6:79760000-79771200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr6:79760200-79771200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
33	chr6:79760600-79770600	Strong transcription	Liver	Liver
34	chr6:79760600-79771800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr6:79760600-79785400	Weak transcription	Right Ventricle	heart
36	chr6:79760600-79786800	Weak transcription	Spleen	Spleen
37	chr6:79761400-79771000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr6:79762200-79768200	Weak transcription	Brain Anterior Caudate	brain
39	chr6:79762200-79768200	Weak transcription	HUVEC	blood vessel
40	chr6:79762200-79774200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr6:79762600-79766800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
42	chr6:79762800-79767800	Weak transcription	Pancreatic Islets	Pancreatic Islet
43	chr6:79763000-79767200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr6:79763200-79766800	Weak transcription	Osteobl	bone
45	chr6:79763200-79770600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
46	chr6:79763200-79776600	Weak transcription	Fetal Intestine Small	intestine
47	chr6:79763600-79767400	Weak transcription	Fetal Kidney	kidney
48	chr6:79763600-79770600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr6:79763600-79771800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr6:79763600-79774600	Weak transcription	Primary T helper naive cells from peripheral blood	blood

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