Variant report

Variant	rs6441350
Chromosome Location	chr3:160786457-160786458
allele	A/G
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:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:160786415..160790259-chr3:161088559..161091068,4	MCF-7	breast:
2	chr3:160776732..160778669-chr3:160784922..160787021,2	MCF-7	breast:
3	chr3:160786229..160788544-chr3:160938497..160940062,2	MCF-7	breast:
4	chr3:160786404..160789728-chr3:161132273..161134989,3	MCF-7	breast:
5	chr3:160784766..160787646-chr3:161137298..161141604,4	MCF-7	breast:
6	chr3:160748438..160750159-chr3:160785119..160786787,2	MCF-7	breast:
7	chr3:160784979..160786656-chr3:160985367..160987693,2	MCF-7	breast:
8	chr3:160785968..160788814-chr3:160790660..160793617,2	K562	blood:
9	chr3:160786158..160788283-chr3:160805883..160807587,2	K562	blood:
10	chr3:160783848..160785805-chr3:160786120..160789700,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000196542	Chromatin interaction
ENSG00000169251	Chromatin interaction

Extended variants
information (count: 126 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:125)

rs_ID	r²[population]
rs10513557	0.82[CHB][hapmap]
rs10513561	0.90[JPT][hapmap];0.81[AMR][1000 genomes]
rs10513562	0.80[JPT][hapmap]
rs12485519	0.84[ASN][1000 genomes]
rs12486069	1.00[ASN][1000 genomes]
rs12486103	0.82[CHB][hapmap];0.90[JPT][hapmap]
rs12487156	0.90[JPT][hapmap];0.81[AMR][1000 genomes]
rs12488403	0.82[CHB][hapmap];0.90[JPT][hapmap]
rs12489004	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs12489125	1.00[ASN][1000 genomes]
rs12490149	1.00[GIH][hapmap];0.87[ASN][1000 genomes]
rs12493266	0.91[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12496235	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12496837	0.85[AMR][1000 genomes]
rs13315320	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs13319771	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1447612	0.82[CHB][hapmap]
rs1447613	0.82[CHB][hapmap]
rs16831546	0.82[CHB][hapmap]
rs16831549	0.82[CHB][hapmap]
rs16831552	0.82[CHB][hapmap]
rs16831555	0.82[CHB][hapmap]
rs16831581	0.82[CHB][hapmap];0.90[JPT][hapmap]
rs16831611	0.82[CHB][hapmap];0.90[JPT][hapmap]
rs16831645	0.81[LWK][hapmap]
rs16831799	1.00[CHB][hapmap];0.90[JPT][hapmap];0.97[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs16831850	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16831853	0.90[ASW][hapmap];1.00[LWK][hapmap];0.95[MKK][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes]
rs16831864	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16831882	1.00[ASN][1000 genomes]
rs16831942	1.00[ASN][1000 genomes]
rs28451189	0.88[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs28704960	1.00[ASN][1000 genomes]
rs28713364	0.85[AMR][1000 genomes]
rs3925722	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4296611	0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4352387	1.00[GIH][hapmap];0.92[MEX][hapmap];0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4468992	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4580574	0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4635725	0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs56807417	0.91[AMR][1000 genomes]
rs57903480	0.84[ASN][1000 genomes]
rs59567999	0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs59593286	0.94[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs59757775	0.84[ASN][1000 genomes]
rs59776766	1.00[ASN][1000 genomes]
rs60121330	1.00[ASN][1000 genomes]
rs6441358	0.86[YRI][hapmap]
rs6441363	0.88[AMR][1000 genomes]
rs6441365	0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6762064	0.83[ASW][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.92[MEX][hapmap];0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6771581	0.94[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6774919	1.00[CHD][hapmap];1.00[GIH][hapmap];0.91[MEX][hapmap];0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6775446	1.00[GIH][hapmap];0.92[MEX][hapmap];0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6775931	0.92[MEX][hapmap];0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6778186	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6782415	0.92[MEX][hapmap];0.88[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs6782518	1.00[GIH][hapmap];0.92[MEX][hapmap];0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6785714	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6787447	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6787599	0.82[CHB][hapmap];0.90[JPT][hapmap]
rs6788738	0.85[AMR][1000 genomes]
rs6790705	0.82[CHB][hapmap];0.90[JPT][hapmap];0.91[AMR][1000 genomes]
rs6790805	0.87[ASN][1000 genomes]
rs6796168	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];0.92[MEX][hapmap];0.95[MKK][hapmap];0.97[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6801664	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6805976	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6806054	0.80[JPT][hapmap]
rs6806729	0.82[CHB][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap]
rs6807796	0.82[CHB][hapmap];0.90[JPT][hapmap]
rs73017340	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs73019384	0.91[AMR][1000 genomes]
rs73021260	0.89[AFR][1000 genomes]
rs73026933	0.90[ASN][1000 genomes]
rs73026967	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs73026968	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs73026983	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs73026987	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs73026989	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs734915	0.84[ASN][1000 genomes]
rs7615833	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7615868	1.00[CHB][hapmap];0.91[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7626773	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7627500	1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];0.91[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs7632423	0.80[JPT][hapmap]
rs7634299	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7639529	0.91[AMR][1000 genomes]
rs7649954	0.81[LWK][hapmap];0.87[MKK][hapmap]
rs7652624	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs778653	0.80[JPT][hapmap]
rs778657	0.80[JPT][hapmap]
rs898683	0.81[LWK][hapmap];0.83[MKK][hapmap]
rs898684	0.81[LWK][hapmap];0.83[MKK][hapmap]
rs9290070	0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9290071	0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs935499	0.82[CHB][hapmap];0.90[JPT][hapmap]
rs9682249	0.97[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9682995	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs9810351	1.00[ASN][1000 genomes]
rs9818835	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9818992	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9819793	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9822916	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9823424	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9824535	1.00[ASN][1000 genomes]
rs9824805	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9826857	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9830183	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9833270	1.00[CHD][hapmap];1.00[GIH][hapmap];0.90[ASN][1000 genomes]
rs9834806	0.88[AMR][1000 genomes]
rs9838945	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9841871	0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9842290	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9847842	1.00[GIH][hapmap];0.92[MEX][hapmap];0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9855112	0.91[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9856742	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9858907	1.00[ASN][1000 genomes]
rs9859641	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9862867	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9871753	1.00[CHD][hapmap];1.00[GIH][hapmap];0.92[MEX][hapmap];0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9875200	0.80[JPT][hapmap]
rs9876077	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9877309	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9884100	0.88[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs9985364	0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931072	chr3:160669567-161159779	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160773200-160786800	Weak transcription	Primary hematopoietic stem cells	blood
2	chr3:160773800-160787200	Weak transcription	Gastric	stomach
3	chr3:160776000-160787200	Weak transcription	Brain Angular Gyrus	brain
4	chr3:160777200-160787800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:160780400-160788600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr3:160780800-160821400	Weak transcription	Fetal Brain Male	brain
7	chr3:160781200-160786600	Weak transcription	Monocytes-CD14+_RO01746	blood
8	chr3:160781400-160803400	Weak transcription	Fetal Muscle Trunk	muscle
9	chr3:160781600-160788000	Weak transcription	Psoas Muscle	Psoas
10	chr3:160781600-160791000	Weak transcription	Colon Smooth Muscle	Colon
11	chr3:160781800-160787200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr3:160781800-160787400	Weak transcription	Fetal Muscle Leg	muscle
13	chr3:160781800-160798200	Weak transcription	Fetal Stomach	stomach
14	chr3:160781800-160822000	Weak transcription	Thymus	Thymus
15	chr3:160782000-160799800	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr3:160782600-160787200	Weak transcription	Brain Cingulate Gyrus	brain
17	chr3:160782800-160795000	Weak transcription	Right Ventricle	heart
18	chr3:160783200-160787200	Weak transcription	Fetal Intestine Small	intestine
19	chr3:160783400-160787200	Weak transcription	Fetal Thymus	thymus
20	chr3:160783400-160787400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr3:160783400-160787400	Weak transcription	Brain Hippocampus Middle	brain
22	chr3:160783400-160788600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr3:160783800-160787200	Weak transcription	Fetal Brain Female	brain
24	chr3:160784000-160787000	Weak transcription	Brain Germinal Matrix	brain
25	chr3:160784000-160787200	Weak transcription	Esophagus	oesophagus
26	chr3:160784000-160789400	Weak transcription	Rectal Smooth Muscle	rectum
27	chr3:160784200-160787200	Enhancers	Primary B cells from cord blood	blood
28	chr3:160784200-160799000	Weak transcription	Ovary	ovary
29	chr3:160784400-160788800	Enhancers	Primary B cells from peripheral blood	blood
30	chr3:160785000-160786800	Enhancers	Fetal Heart	heart
31	chr3:160785000-160786800	Enhancers	GM12878-XiMat	blood
32	chr3:160785000-160789000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
33	chr3:160785400-160787400	Enhancers	Muscle Satellite Cultured Cells	--
34	chr3:160785400-160788600	Enhancers	Pancreas	Pancrea
35	chr3:160785400-160788800	Strong transcription	Stomach Smooth Muscle	stomach
36	chr3:160785600-160786600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
37	chr3:160785600-160786600	Weak transcription	Osteobl	bone
38	chr3:160785600-160787200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
39	chr3:160785600-160787200	Weak transcription	Aorta	Aorta
40	chr3:160785600-160787200	Weak transcription	Brain Anterior Caudate	brain
41	chr3:160785600-160787800	Weak transcription	Adipose Nuclei	Adipose
42	chr3:160785800-160789000	Weak transcription	Primary neutrophils fromperipheralblood	blood
43	chr3:160786200-160788400	Enhancers	Placenta	Placenta
44	chr3:160786200-160788800	Weak transcription	Pancreatic Islets	Pancreatic Islet
45	chr3:160786400-160787000	Strong transcription	Primary T cells from cord blood	blood
46	chr3:160786400-160787200	Weak transcription	Right Atrium	heart
47	chr3:160786400-160787400	Enhancers	Left Ventricle	heart
48	chr3:160786400-160788000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr3:160786400-160788000	Strong transcription	Skeletal Muscle Male	skeletal muscle
50	chr3:160786400-160788200	Strong transcription	Skeletal Muscle Female	skeletal muscle

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