Variant report

Variant	rs55664658
Chromosome Location	chr6:30018349-30018350
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:29999651..30002590-chr6:30017205..30019223,2	K562	blood:
2	chr6:30006360..30008334-chr6:30017621..30020296,2	MCF-7	breast:
3	chr6:30015421..30020650-chr6:30026459..30030822,8	K562	blood:

Variant related genes	Relation type
ENSG00000066379	Chromatin interaction
ENSG00000204623	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10484549	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16896044	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16896851	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16896923	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16896970	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17180227	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17180836	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17186566	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17187693	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17193696	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2286404	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2394249	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2893999	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3823368	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs41545022	0.82[EUR][1000 genomes]
rs55808509	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56073777	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56149225	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56181708	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56185319	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56270681	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56289102	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs56378970	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58161072	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62388723	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62388749	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62388750	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62388751	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62388752	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62388754	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62388755	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62388756	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62388757	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62390160	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62390162	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62390181	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62390510	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1031115	chr6:29934199-30058223	Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	nsv538172	chr6:29934199-30058223	Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	nsv884046	chr6:29997312-30023868	Weak transcription Genic enhancers Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv884048	chr6:30005754-30021740	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:85 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:29975200-30027800	Weak transcription	Aorta	Aorta
2	chr6:29975600-30027800	Weak transcription	Right Ventricle	heart
3	chr6:29975800-30027800	Weak transcription	Gastric	stomach
4	chr6:29976600-30023000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
5	chr6:29977200-30024600	Weak transcription	Brain Anterior Caudate	brain
6	chr6:29977200-30027600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
7	chr6:29977200-30027800	Weak transcription	Fetal Intestine Small	intestine
8	chr6:29979000-30027600	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr6:29979400-30024600	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr6:29979600-30022800	Weak transcription	Ovary	ovary
11	chr6:29979800-30027800	Weak transcription	Pancreas	Pancrea
12	chr6:29981200-30023000	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr6:29982800-30022800	Weak transcription	Fetal Muscle Leg	muscle
14	chr6:29984600-30023400	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr6:29985000-30024600	Weak transcription	Brain Angular Gyrus	brain
16	chr6:29987800-30024800	Weak transcription	Fetal Intestine Large	intestine
17	chr6:29988200-30022800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr6:29988200-30027800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
19	chr6:29988200-30027800	Weak transcription	Esophagus	oesophagus
20	chr6:29988400-30021600	Weak transcription	Primary hematopoietic stem cells	blood
21	chr6:29988400-30023400	Weak transcription	Adipose Nuclei	Adipose
22	chr6:29988400-30027800	Weak transcription	Thymus	Thymus
23	chr6:29988600-30022200	Weak transcription	Stomach Smooth Muscle	stomach
24	chr6:29988600-30027400	Weak transcription	Duodenum Mucosa	Duodenum
25	chr6:29988800-30022800	Weak transcription	Brain Hippocampus Middle	brain
26	chr6:29989000-30023000	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr6:29989400-30021400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
28	chr6:29998000-30027600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
29	chr6:29999200-30027200	Weak transcription	Fetal Heart	heart
30	chr6:29999800-30022200	Weak transcription	Primary B cells from peripheral blood	blood
31	chr6:30000000-30027400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
32	chr6:30001200-30025000	Weak transcription	Fetal Lung	lung
33	chr6:30001200-30027800	Weak transcription	Fetal Kidney	kidney
34	chr6:30001600-30022600	Weak transcription	Brain Substantia Nigra	brain
35	chr6:30001800-30024800	Weak transcription	Rectal Mucosa Donor 29	rectum
36	chr6:30002000-30021600	Weak transcription	Liver	Liver
37	chr6:30002800-30022800	Weak transcription	Primary B cells from cord blood	blood
38	chr6:30003000-30021000	Weak transcription	Primary T cells from cord blood	blood
39	chr6:30003000-30021400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
40	chr6:30003000-30027200	Weak transcription	Dnd41	blood
41	chr6:30003200-30024200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
42	chr6:30003400-30021400	Weak transcription	Primary T helper cells fromperipheralblood	blood
43	chr6:30003800-30020800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
44	chr6:30004200-30022600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
45	chr6:30005400-30023000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
46	chr6:30006200-30027600	Weak transcription	Colon Smooth Muscle	Colon
47	chr6:30009800-30021800	Weak transcription	Primary T cells fromperipheralblood	blood
48	chr6:30010200-30023000	Weak transcription	Left Ventricle	heart
49	chr6:30010600-30023200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
50	chr6:30011000-30027800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain

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