Variant report

Variant	rs73576173
Chromosome Location	chr6:146202784-146202785
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:3)
LncRNA
region (count:4)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:3 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:146198677..146204458-chr6:146205817..146210739,7	K562	blood:
2	chr6:146056487..146058522-chr6:146202242..146203879,2	MCF-7	breast:
3	chr6:146134557..146137381-chr6:146201371..146203533,4	MCF-7	breast:

(count:4 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GRM1-1	chr6:146202715-146202784	ENSG00000235652
2	lnc-GRM1-1	chr6:146202715-146202784	NONHSAT115401
3	lnc-GRM1-1	chr6:146202715-146202784	ENSG00000235652.3
4	lnc-GRM1-1	chr6:146202715-146202784	ENSG00000235652.3

No data

Variant related genes	Relation type
ENSG00000270828	Chromatin interaction
ENSG00000118496	Chromatin interaction
ENSG00000270638	Chromatin interaction
ENSG00000235652	Chromatin interaction
ENSG00000112425	Chromatin interaction

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs12332892	1.00[EUR][1000 genomes]
rs28738876	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55671343	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55879513	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56954340	1.00[EUR][1000 genomes]
rs57057101	1.00[EUR][1000 genomes]
rs57776904	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57889864	1.00[EUR][1000 genomes]
rs58290238	1.00[EUR][1000 genomes]
rs58702332	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59951042	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60430705	1.00[EUR][1000 genomes]
rs60698481	1.00[EUR][1000 genomes]
rs60885622	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60899243	1.00[EUR][1000 genomes]
rs6570725	1.00[EUR][1000 genomes]
rs6570727	1.00[EUR][1000 genomes]
rs6570730	1.00[EUR][1000 genomes]
rs6900565	1.00[EUR][1000 genomes]
rs6900607	1.00[EUR][1000 genomes]
rs6904612	1.00[EUR][1000 genomes]
rs6918314	1.00[EUR][1000 genomes]
rs6920565	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6924714	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6928607	1.00[EUR][1000 genomes]
rs6935019	1.00[EUR][1000 genomes]
rs6936647	1.00[EUR][1000 genomes]
rs6936879	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6938895	1.00[EUR][1000 genomes]
rs6940256	1.00[EUR][1000 genomes]
rs73566143	1.00[EUR][1000 genomes]
rs73570006	1.00[EUR][1000 genomes]
rs73570010	1.00[EUR][1000 genomes]
rs73570033	1.00[EUR][1000 genomes]
rs73570037	1.00[EUR][1000 genomes]
rs73570042	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73572161	1.00[EUR][1000 genomes]
rs73572189	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73574105	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73576133	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73576161	1.00[EUR][1000 genomes]
rs73576180	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73576928	1.00[EUR][1000 genomes]
rs73578805	1.00[EUR][1000 genomes]
rs73578807	1.00[EUR][1000 genomes]
rs73578811	1.00[EUR][1000 genomes]
rs73578812	1.00[EUR][1000 genomes]
rs73578814	1.00[EUR][1000 genomes]
rs73578823	1.00[EUR][1000 genomes]
rs73578827	1.00[EUR][1000 genomes]
rs73578832	1.00[EUR][1000 genomes]
rs73578833	1.00[EUR][1000 genomes]
rs73580158	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73580169	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73580174	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73580180	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73580202	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73582109	1.00[EUR][1000 genomes]
rs73582112	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73582116	1.00[EUR][1000 genomes]
rs73582125	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73582139	1.00[EUR][1000 genomes]
rs73582149	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73582176	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73582189	1.00[EUR][1000 genomes]
rs73584226	1.00[EUR][1000 genomes]
rs7739858	1.00[EUR][1000 genomes]
rs7740567	1.00[EUR][1000 genomes]
rs7748102	0.85[AMR][1000 genomes]
rs7757974	1.00[EUR][1000 genomes]
rs7762880	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9322040	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9497422	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9497423	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9497430	1.00[EUR][1000 genomes]
rs9497449	1.00[EUR][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	nsv1034226	chr6:146071068-146306942	Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv830835	chr6:146145148-146287473	Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:146177600-146204200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:146185200-146212200	Weak transcription	Primary neutrophils fromperipheralblood	blood
3	chr6:146186400-146213200	Weak transcription	Brain Anterior Caudate	brain
4	chr6:146188000-146218800	Weak transcription	Right Ventricle	heart
5	chr6:146188800-146209000	Weak transcription	Primary T cells fromperipheralblood	blood
6	chr6:146189400-146202800	Weak transcription	Stomach Smooth Muscle	stomach
7	chr6:146189400-146214400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr6:146189600-146211800	Weak transcription	Primary B cells from peripheral blood	blood
9	chr6:146193400-146207600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr6:146194000-146211800	Weak transcription	Primary hematopoietic stem cells	blood
11	chr6:146194800-146212400	Weak transcription	HUVEC	blood vessel
12	chr6:146195000-146209400	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr6:146196200-146210000	Weak transcription	Fetal Brain Male	brain
14	chr6:146196600-146212200	Weak transcription	Aorta	Aorta
15	chr6:146196600-146219600	Weak transcription	HMEC	breast
16	chr6:146196800-146209000	Weak transcription	Duodenum Mucosa	Duodenum
17	chr6:146197200-146209000	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr6:146197400-146203000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr6:146197800-146219600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr6:146198000-146204000	Weak transcription	Psoas Muscle	Psoas
21	chr6:146198000-146204000	Weak transcription	Monocytes-CD14+_RO01746	blood
22	chr6:146198000-146204400	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr6:146198000-146204800	Weak transcription	Primary monocytes fromperipheralblood	blood
24	chr6:146198000-146209400	Weak transcription	Brain Substantia Nigra	brain
25	chr6:146198000-146209600	Weak transcription	Fetal Brain Female	brain
26	chr6:146198200-146212400	Weak transcription	Fetal Kidney	kidney
27	chr6:146198200-146218600	Weak transcription	Fetal Heart	heart
28	chr6:146198200-146225600	Weak transcription	HSMMtube	muscle
29	chr6:146198800-146203800	Weak transcription	Primary T helper cells fromperipheralblood	blood
30	chr6:146198800-146207200	Weak transcription	HUES48 Cell Line	embryonic stem cell
31	chr6:146199200-146203000	Weak transcription	Hela-S3	cervix
32	chr6:146199200-146208800	Weak transcription	Fetal Thymus	thymus
33	chr6:146199600-146209400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr6:146199800-146203000	Weak transcription	Rectal Smooth Muscle	rectum
35	chr6:146199800-146209200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
36	chr6:146199800-146209600	Weak transcription	Brain Hippocampus Middle	brain
37	chr6:146199800-146214400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
38	chr6:146200000-146203000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr6:146200000-146203000	Weak transcription	Colon Smooth Muscle	Colon
40	chr6:146200000-146209600	Weak transcription	Rectal Mucosa Donor 31	rectum
41	chr6:146200000-146214200	Weak transcription	Brain Inferior Temporal Lobe	brain
42	chr6:146200200-146204400	Weak transcription	H1 Cell Line	embryonic stem cell
43	chr6:146200200-146204400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr6:146200200-146209000	Weak transcription	Placenta	Placenta
45	chr6:146200400-146207400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr6:146200400-146209000	Weak transcription	Primary T helper cells PMA-I stimulated	--
47	chr6:146200400-146228600	Weak transcription	Pancreas	Pancrea
48	chr6:146200600-146207800	Weak transcription	Osteobl	bone
49	chr6:146200600-146209600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
50	chr6:146200600-146211000	Weak transcription	Brain Angular Gyrus	brain

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