Variant report

Variant	rs7170429
Chromosome Location	chr15:52103520-52103521
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:52100222..52103696-chr15:52103888..52107125,3	MCF-7	breast:
2	chr15:52099817..52103659-chr15:52120631..52123209,5	MCF-7	breast:
3	chr15:52100848..52103641-chr15:52104210..52107534,4	K562	blood:
4	chr15:52098121..52099949-chr15:52102548..52104205,2	K562	blood:
5	chr15:52103137..52106256-chr15:52118863..52123182,5	MCF-7	breast:
6	chr15:52100912..52103641-chr15:52104317..52106256,2	K562	blood:

Variant related genes	Relation type
ENSG00000138594	Chromatin interaction

Extended variants
information (count: 112 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:110)

rs_ID	r²[population]
rs1025185	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10519323	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10519325	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10519326	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12438469	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12442283	1.00[EUR][1000 genomes]
rs1378891	1.00[EUR][1000 genomes]
rs1426085	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1426086	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16964523	1.00[JPT][hapmap]
rs17649047	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17649178	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17649208	1.00[JPT][hapmap]
rs17649255	0.86[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17649391	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17649692	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17649801	1.00[EUR][1000 genomes]
rs17649820	0.88[AMR][1000 genomes]
rs17649826	0.88[AMR][1000 genomes]
rs17705530	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17705649	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17705685	1.00[JPT][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17705889	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17706076	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2052707	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2162224	1.00[EUR][1000 genomes]
rs2263946	0.81[AMR][1000 genomes]
rs2436664	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2470613	1.00[EUR][1000 genomes]
rs2554309	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2554310	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2554311	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2554318	1.00[EUR][1000 genomes]
rs2554323	1.00[EUR][1000 genomes]
rs2554325	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2554326	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2554330	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2554333	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2554351	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2554352	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2554356	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2570218	0.86[JPT][hapmap];1.00[EUR][1000 genomes]
rs2570219	1.00[EUR][1000 genomes]
rs2570220	1.00[EUR][1000 genomes]
rs2570221	1.00[EUR][1000 genomes]
rs2570227	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2570232	0.82[AMR][1000 genomes]
rs2570242	0.86[JPT][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2570244	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2570245	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2570247	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2570249	0.86[JPT][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2570250	0.86[JPT][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2570256	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2570257	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2570259	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2570261	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2570267	1.00[EUR][1000 genomes]
rs2570270	1.00[EUR][1000 genomes]
rs2570273	0.86[JPT][hapmap];1.00[EUR][1000 genomes]
rs2570274	1.00[EUR][1000 genomes]
rs2593165	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2593175	1.00[EUR][1000 genomes]
rs2593176	1.00[EUR][1000 genomes]
rs2593180	1.00[EUR][1000 genomes]
rs2623246	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2623250	0.86[JPT][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2623252	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2623257	1.00[EUR][1000 genomes]
rs2623260	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2623264	1.00[EUR][1000 genomes]
rs2623267	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2623268	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2623269	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2623277	1.00[EUR][1000 genomes]
rs2623278	1.00[EUR][1000 genomes]
rs2623287	1.00[EUR][1000 genomes]
rs2899483	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2916174	1.00[EUR][1000 genomes]
rs2959297	1.00[EUR][1000 genomes]
rs2959303	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3099570	1.00[EUR][1000 genomes]
rs34407523	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs36097346	0.92[ASN][1000 genomes]
rs3794533	1.00[CHB][hapmap];0.86[JPT][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3794537	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4774600	1.00[EUR][1000 genomes]
rs4774601	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4775979	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4775987	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4775988	1.00[EUR][1000 genomes]
rs4775989	1.00[EUR][1000 genomes]
rs4775990	0.82[AMR][1000 genomes]
rs7166322	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7170700	1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7173661	1.00[CHB][hapmap];1.00[EUR][1000 genomes]
rs7179139	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72730966	0.81[ASN][1000 genomes]
rs73407386	0.92[ASN][1000 genomes]
rs73407396	0.92[ASN][1000 genomes]
rs73409011	0.81[ASN][1000 genomes]
rs73411105	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74013606	0.91[AMR][1000 genomes]
rs8024441	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8026507	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8027426	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8042310	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs919056	0.81[AMR][1000 genomes]
rs919057	0.86[JPT][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs990666	0.86[JPT][hapmap];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	nsv569409	chr15:52028914-52268144	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	esv3361968	chr15:52087428-52107237	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52052600-52106600	Weak transcription	HSMM	muscle
2	chr15:52060800-52105400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr15:52061600-52112000	Weak transcription	NHLF	lung
4	chr15:52076800-52104400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr15:52085800-52105200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr15:52085800-52108800	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr15:52089000-52106400	Weak transcription	HSMMtube	muscle
8	chr15:52089200-52107200	Strong transcription	Monocytes-CD14+_RO01746	blood
9	chr15:52090400-52104400	Strong transcription	Primary monocytes fromperipheralblood	blood
10	chr15:52091200-52104600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr15:52091200-52109400	Weak transcription	Gastric	stomach
12	chr15:52091400-52103600	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr15:52091800-52108200	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr15:52092000-52107800	Weak transcription	Fetal Muscle Leg	muscle
15	chr15:52093600-52105200	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr15:52093800-52108600	Weak transcription	Fetal Lung	lung
17	chr15:52096000-52104800	Weak transcription	Placenta	Placenta
18	chr15:52098400-52104000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr15:52098400-52104400	Strong transcription	Brain Anterior Caudate	brain
20	chr15:52098400-52104400	Strong transcription	Brain Cingulate Gyrus	brain
21	chr15:52098400-52106800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
22	chr15:52098800-52108800	Weak transcription	Primary neutrophils fromperipheralblood	blood
23	chr15:52099200-52107400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
24	chr15:52099200-52108800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr15:52099400-52107200	Weak transcription	Primary T helper cells PMA-I stimulated	--
26	chr15:52099600-52108600	Weak transcription	Primary B cells from peripheral blood	blood
27	chr15:52099600-52108800	Weak transcription	Duodenum Mucosa	Duodenum
28	chr15:52099800-52103600	Weak transcription	Ovary	ovary
29	chr15:52099800-52108400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
30	chr15:52099800-52109000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr15:52099800-52109400	Weak transcription	Spleen	Spleen
32	chr15:52099800-52110000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr15:52099800-52110400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr15:52099800-52110400	Weak transcription	Left Ventricle	heart
35	chr15:52099800-52113800	Weak transcription	Aorta	Aorta
36	chr15:52100000-52103600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
37	chr15:52100000-52103600	Weak transcription	Rectal Smooth Muscle	rectum
38	chr15:52100000-52104400	Weak transcription	Fetal Muscle Trunk	muscle
39	chr15:52100000-52106200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr15:52100000-52109400	Weak transcription	Esophagus	oesophagus
41	chr15:52100000-52109400	Weak transcription	Fetal Stomach	stomach
42	chr15:52100000-52109400	Weak transcription	Lung	lung
43	chr15:52100000-52110200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr15:52100000-52113200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
45	chr15:52100200-52103600	Weak transcription	Fetal Brain Male	brain
46	chr15:52100200-52104800	Weak transcription	Primary B cells from cord blood	blood
47	chr15:52100200-52109400	Weak transcription	Fetal Brain Female	brain
48	chr15:52100400-52105400	Weak transcription	Thymus	Thymus
49	chr15:52100400-52108400	Weak transcription	Skeletal Muscle Male	skeletal muscle
50	chr15:52100600-52109800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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