Variant report

Variant	rs906569
Chromosome Location	chr4:175189027-175189028
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:175181041..175183420-chr4:175187913..175190511,2	MCF-7	breast:
2	chr4:175187428..175189040-chr4:175205040..175206588,2	K562	blood:

Variant related genes	Relation type
ENSG00000164117	Chromatin interaction
ENSG00000164118	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10434410	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10520278	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10520279	0.94[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13122347	0.94[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13134635	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13137178	1.00[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1396193	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17060395	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs17060404	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17060428	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17060454	0.94[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35190385	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35593724	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35689614	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs36081616	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62335793	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62335798	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6553781	1.00[JPT][hapmap]
rs66919862	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6840664	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72621998	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7671444	0.80[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7684619	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7696841	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs906570	1.00[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs954927	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9715080	0.92[AMR][1000 genomes];0.84[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	nsv1016910	chr4:174952788-175349057	Bivalent Enhancer Flanking Active TSS Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv537363	chr4:174952788-175349057	Active TSS Bivalent Enhancer Weak transcription Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv881449	chr4:174984230-175225452	Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
4	nsv596234	chr4:175053051-175361437	Weak transcription Bivalent Enhancer Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:175147600-175195200	Weak transcription	Psoas Muscle	Psoas
2	chr4:175151400-175192800	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr4:175153400-175191600	Weak transcription	Fetal Muscle Leg	muscle
4	chr4:175154200-175204000	Weak transcription	Aorta	Aorta
5	chr4:175154200-175204200	Weak transcription	Esophagus	oesophagus
6	chr4:175154400-175202400	Weak transcription	Gastric	stomach
7	chr4:175158800-175202000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr4:175159800-175199800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr4:175161000-175192400	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr4:175169800-175203600	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr4:175171800-175195200	Weak transcription	Pancreas	Pancrea
12	chr4:175174800-175199800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr4:175174800-175203400	Weak transcription	Thymus	Thymus
14	chr4:175175000-175196200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr4:175175000-175198600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
16	chr4:175177400-175190400	Weak transcription	Fetal Kidney	kidney
17	chr4:175177400-175197800	Weak transcription	Fetal Muscle Trunk	muscle
18	chr4:175177600-175192000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr4:175178000-175189200	Weak transcription	Fetal Heart	heart
20	chr4:175178000-175198600	Weak transcription	K562	blood
21	chr4:175178000-175203600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
22	chr4:175178200-175191400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr4:175178200-175193800	Weak transcription	HSMMtube	muscle
24	chr4:175179200-175192200	Weak transcription	Primary neutrophils fromperipheralblood	blood
25	chr4:175179200-175204000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr4:175179400-175202400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr4:175181000-175201600	Weak transcription	Fetal Thymus	thymus
28	chr4:175181200-175189200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr4:175181600-175189200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
30	chr4:175181600-175196200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
31	chr4:175181600-175203400	Weak transcription	Rectal Mucosa Donor 31	rectum
32	chr4:175181600-175203600	Weak transcription	Primary hematopoietic stem cells	blood
33	chr4:175182200-175202600	Weak transcription	Fetal Intestine Small	intestine
34	chr4:175184000-175195800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
35	chr4:175184200-175189200	Weak transcription	Primary monocytes fromperipheralblood	blood
36	chr4:175184200-175189200	Weak transcription	Primary T helper cells PMA-I stimulated	--
37	chr4:175184200-175193600	Weak transcription	Lung	lung
38	chr4:175184200-175197800	Weak transcription	Primary T helper cells fromperipheralblood	blood
39	chr4:175184200-175199800	Weak transcription	Dnd41	blood
40	chr4:175184200-175202400	Weak transcription	Fetal Intestine Large	intestine
41	chr4:175184200-175203600	Weak transcription	HSMM	muscle
42	chr4:175184400-175189600	Weak transcription	Primary T cells from cord blood	blood
43	chr4:175184400-175189600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
44	chr4:175184400-175189600	Weak transcription	Fetal Stomach	stomach
45	chr4:175184400-175190400	Weak transcription	Adipose Nuclei	Adipose
46	chr4:175184400-175200800	Weak transcription	Monocytes-CD14+_RO01746	blood
47	chr4:175184400-175202400	Weak transcription	Primary B cells from peripheral blood	blood
48	chr4:175184400-175202600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr4:175184400-175204000	Weak transcription	Left Ventricle	heart
50	chr4:175184800-175191200	Weak transcription	Ovary	ovary

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