Variant report

Variant	rs7754530
Chromosome Location	chr6:35337958-35337959
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:35335918..35340012-chr6:35342665..35344421,4	K562	blood:
2	chr6:35337473..35339598-chr6:35358141..35360010,2	K562	blood:
3	chr6:35337130..35339523-chr6:35342584..35344904,3	MCF-7	breast:
4	chr6:35335918..35339865-chr6:35340596..35344421,5	K562	blood:
5	chr6:35329439..35333357-chr6:35335770..35342563,9	K562	blood:
6	chr6:35319838..35321444-chr6:35336659..35338777,2	K562	blood:

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10947553	1.00[ASN][1000 genomes]
rs11962571	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11963387	1.00[ASN][1000 genomes]
rs11963864	1.00[ASN][1000 genomes]
rs11965291	1.00[ASN][1000 genomes]
rs11966959	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2395620	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34866878	1.00[ASN][1000 genomes]
rs41270080	1.00[ASN][1000 genomes]
rs45484291	1.00[ASN][1000 genomes]
rs45492197	1.00[ASN][1000 genomes]
rs45532932	1.00[ASN][1000 genomes]
rs45586932	1.00[ASN][1000 genomes]
rs45614138	1.00[ASN][1000 genomes]
rs4713842	0.88[YRI][hapmap]
rs4713843	0.88[YRI][hapmap]
rs56002954	1.00[ASN][1000 genomes]
rs56093109	1.00[ASN][1000 genomes]
rs57634040	1.00[ASN][1000 genomes]
rs60156710	1.00[ASN][1000 genomes]
rs61024208	1.00[ASN][1000 genomes]
rs61734569	1.00[ASN][1000 genomes]
rs6902870	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6903096	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6913026	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6925456	1.00[ASN][1000 genomes]
rs6936165	1.00[ASN][1000 genomes]
rs6937483	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6940708	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6940722	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6941244	1.00[ASN][1000 genomes]
rs707969	0.86[ASW][hapmap];0.92[MKK][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes]
rs73413737	1.00[ASN][1000 genomes]
rs73746465	1.00[ASN][1000 genomes]
rs73746467	1.00[ASN][1000 genomes]
rs73746471	1.00[ASN][1000 genomes]
rs73746473	1.00[ASN][1000 genomes]
rs73746478	1.00[ASN][1000 genomes]
rs73746481	1.00[ASN][1000 genomes]
rs73746488	1.00[ASN][1000 genomes]
rs7745039	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7755021	1.00[ASN][1000 genomes]
rs7757196	0.88[YRI][hapmap];1.00[ASN][1000 genomes]
rs7758125	1.00[ASN][1000 genomes]
rs7762983	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7766007	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7768163	1.00[ASN][1000 genomes]
rs7768741	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7771222	1.00[ASN][1000 genomes]
rs9462080	1.00[ASN][1000 genomes]
rs9470018	1.00[ASN][1000 genomes]
rs9658056	1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9658060	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9658118	1.00[ASN][1000 genomes]
rs9658126	1.00[ASN][1000 genomes]
rs9658136	0.88[YRI][hapmap];1.00[ASN][1000 genomes]
rs9658141	1.00[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	nsv830641	chr6:35282534-35440603	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	57 gene(s)	inside rSNPs	diseases
2	nsv462907	chr6:35333799-35408959	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv602908	chr6:35333799-35408959	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:108 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35321000-35342400	Weak transcription	Fetal Kidney	kidney
2	chr6:35328400-35344800	Weak transcription	Fetal Lung	lung
3	chr6:35329000-35350800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr6:35329600-35338400	Weak transcription	Stomach Smooth Muscle	stomach
5	chr6:35331200-35350800	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr6:35331400-35339200	Weak transcription	Brain Inferior Temporal Lobe	brain
7	chr6:35331600-35338000	Weak transcription	Gastric	stomach
8	chr6:35331600-35345400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr6:35331600-35345400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr6:35332200-35338000	Weak transcription	Brain Angular Gyrus	brain
11	chr6:35334200-35339800	Enhancers	K562	blood
12	chr6:35334800-35339400	Enhancers	Psoas Muscle	Psoas
13	chr6:35335000-35339800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr6:35335400-35338600	Enhancers	HepG2	liver
15	chr6:35335400-35339400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr6:35335400-35339800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
17	chr6:35335400-35339800	Enhancers	Adipose Nuclei	Adipose
18	chr6:35335400-35340000	Enhancers	Primary T cells fromperipheralblood	blood
19	chr6:35335600-35338200	Weak transcription	Fetal Stomach	stomach
20	chr6:35335600-35338800	Enhancers	Breast Myoepithelial Primary Cells	Breast
21	chr6:35335600-35339000	Enhancers	Hela-S3	cervix
22	chr6:35335600-35339200	Enhancers	Primary monocytes fromperipheralblood	blood
23	chr6:35335600-35339400	Enhancers	Small Intestine	intestine
24	chr6:35335600-35339400	Enhancers	Dnd41	blood
25	chr6:35335600-35339800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
26	chr6:35335800-35338000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr6:35335800-35338000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr6:35335800-35339600	Enhancers	Sigmoid Colon	Sigmoid Colon
29	chr6:35335800-35340000	Enhancers	Primary T helper cells fromperipheralblood	blood
30	chr6:35335800-35340400	Enhancers	Spleen	Spleen
31	chr6:35336000-35338000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
32	chr6:35336000-35338000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
33	chr6:35336000-35338200	Enhancers	Duodenum Mucosa	Duodenum
34	chr6:35336000-35338800	Enhancers	Brain Substantia Nigra	brain
35	chr6:35336000-35338800	Enhancers	A549	lung
36	chr6:35336000-35339200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr6:35336000-35339400	Enhancers	NHLF	lung
38	chr6:35336000-35339600	Enhancers	Fetal Thymus	thymus
39	chr6:35336000-35339600	Enhancers	HMEC	breast
40	chr6:35336000-35339800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
41	chr6:35336000-35339800	Enhancers	HUVEC	blood vessel
42	chr6:35336200-35338000	Enhancers	Primary neutrophils fromperipheralblood	blood
43	chr6:35336200-35338000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr6:35336200-35338000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
45	chr6:35336200-35338400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr6:35336200-35338800	Enhancers	Primary B cells from cord blood	blood
47	chr6:35336200-35339400	Flanking Active TSS	GM12878-XiMat	blood
48	chr6:35336200-35339600	Enhancers	Placenta	Placenta
49	chr6:35336200-35340000	Enhancers	Primary B cells from peripheral blood	blood
50	chr6:35336400-35338000	Weak transcription	Rectal Smooth Muscle	rectum

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