Variant report

Variant	rs6440675
Chromosome Location	chr3:150165012-150165013
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:150154296..150156771-chr3:150162812..150165621,2	MCF-7	breast:
2	chr3:150125330..150128900-chr3:150162907..150168897,9	MCF-7	breast:
3	chr3:150159261..150162412-chr3:150164132..150166856,3	MCF-7	breast:
4	chr3:150130787..150132755-chr3:150164402..150166675,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000196428	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10935799	1.00[AMR][1000 genomes]
rs28420602	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28432951	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28592750	1.00[AMR][1000 genomes]
rs57522409	1.00[AMR][1000 genomes]
rs58493383	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58823268	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60875454	1.00[AMR][1000 genomes]
rs61734436	1.00[AMR][1000 genomes]
rs6440674	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7624827	1.00[AMR][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	nsv877645	chr3:150103135-150212698	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150131000-150166000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:150132400-150175000	Weak transcription	Primary T cells fromperipheralblood	blood
3	chr3:150132400-150175000	Weak transcription	Placenta	Placenta
4	chr3:150134600-150174800	Weak transcription	Dnd41	blood
5	chr3:150135000-150175600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
6	chr3:150137200-150176200	Weak transcription	HepG2	liver
7	chr3:150140000-150171800	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr3:150140000-150176200	Weak transcription	Fetal Stomach	stomach
9	chr3:150141400-150175200	Weak transcription	GM12878-XiMat	blood
10	chr3:150141800-150166800	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr3:150144200-150179000	Weak transcription	Aorta	Aorta
12	chr3:150147000-150167200	Weak transcription	Pancreatic Islets	Pancreatic Islet
13	chr3:150148400-150165200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr3:150149600-150176000	Weak transcription	Fetal Brain Female	brain
15	chr3:150151400-150171200	Weak transcription	Brain Anterior Caudate	brain
16	chr3:150151400-150171600	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr3:150151800-150167000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr3:150152200-150166000	Weak transcription	Lung	lung
19	chr3:150152200-150168800	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr3:150152200-150171200	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr3:150152400-150165200	Weak transcription	Fetal Heart	heart
22	chr3:150152400-150166800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr3:150152800-150165200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr3:150153000-150175600	Weak transcription	Right Ventricle	heart
25	chr3:150153600-150178200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
26	chr3:150153800-150176000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr3:150154000-150175800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
28	chr3:150154200-150176000	Weak transcription	H1 Cell Line	embryonic stem cell
29	chr3:150154600-150165200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
30	chr3:150154800-150165600	Weak transcription	HUES48 Cell Line	embryonic stem cell
31	chr3:150157800-150173000	Weak transcription	Brain Hippocampus Middle	brain
32	chr3:150158600-150165400	Weak transcription	Duodenum Smooth Muscle	Duodenum
33	chr3:150158600-150178200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr3:150159200-150166200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr3:150159600-150165200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
36	chr3:150159800-150171600	Weak transcription	Brain Substantia Nigra	brain
37	chr3:150159800-150175600	Weak transcription	Thymus	Thymus
38	chr3:150159800-150176200	Weak transcription	Spleen	Spleen
39	chr3:150160000-150165200	Weak transcription	Left Ventricle	heart
40	chr3:150160200-150175800	Weak transcription	Fetal Muscle Trunk	muscle
41	chr3:150160400-150174800	Weak transcription	Primary B cells from peripheral blood	blood
42	chr3:150160600-150176200	Weak transcription	Esophagus	oesophagus
43	chr3:150160600-150178000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
44	chr3:150160800-150165400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
45	chr3:150160800-150166000	Weak transcription	Pancreas	Pancrea
46	chr3:150160800-150166000	Weak transcription	Psoas Muscle	Psoas
47	chr3:150160800-150168200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
48	chr3:150160800-150175200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
49	chr3:150160800-150175200	Weak transcription	Fetal Thymus	thymus
50	chr3:150160800-150175800	Weak transcription	Fetal Muscle Leg	muscle

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