Variant report

Variant	rs12658867
Chromosome Location	chr5:36142648-36142649
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:36142364..36144449-chr5:36149144..36153081,4	MCF-7	breast:
2	chr5:36141299..36144114-chr5:36149805..36153077,4	K562	blood:

Variant related genes	Relation type
ENSG00000164187	Chromatin interaction
ENSG00000145604	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs1113073	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12513526	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12522542	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12654974	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12655763	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13156321	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13163292	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13177876	0.87[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.98[TSI][hapmap];0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13181789	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1353269	0.86[ASW][hapmap]
rs1393158	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs144694	0.82[CEU][hapmap]
rs1501817	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17342682	0.92[CEU][hapmap];0.84[JPT][hapmap];0.88[MEX][hapmap];0.88[TSI][hapmap]
rs17343598	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1827369	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1827371	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2012367	0.96[CEU][hapmap];0.84[JPT][hapmap]
rs267758	0.82[CEU][hapmap]
rs267766	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs267787	0.81[CEU][hapmap]
rs34165875	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34783816	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35746165	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs36064347	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3898058	1.00[CHB][hapmap];0.82[JPT][hapmap];0.98[ASN][1000 genomes]
rs3913488	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4021314	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs40499	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4415106	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4869468	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4869614	0.92[CEU][hapmap]
rs766064	0.96[CEU][hapmap];0.94[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.88[TSI][hapmap];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7705825	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7705975	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7706216	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv32711	chr5:36047797-36146166	Weak transcription Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv830262	chr5:36074311-36293872	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	63 gene(s)	inside rSNPs	diseases
3	nsv4795	chr5:36106115-36150407	Weak transcription ZNF genes & repeats Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region miRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:106 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:36101200-36150800	Weak transcription	Colonic Mucosa	Colon
2	chr5:36103600-36147200	Weak transcription	HUVEC	blood vessel
3	chr5:36108400-36150600	Weak transcription	Muscle Satellite Cultured Cells	--
4	chr5:36108600-36142800	Weak transcription	Fetal Kidney	kidney
5	chr5:36117400-36150200	Weak transcription	Colon Smooth Muscle	Colon
6	chr5:36122400-36147800	Weak transcription	NHDF-Ad	bronchial
7	chr5:36126800-36150400	Weak transcription	Fetal Heart	heart
8	chr5:36128200-36150800	Weak transcription	Psoas Muscle	Psoas
9	chr5:36129400-36149200	Weak transcription	Fetal Brain Male	brain
10	chr5:36129800-36146600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
11	chr5:36129800-36148400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr5:36130000-36143200	Weak transcription	K562	blood
13	chr5:36130000-36147400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr5:36132600-36150800	Weak transcription	Right Ventricle	heart
15	chr5:36134200-36150400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr5:36136600-36149400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
17	chr5:36136600-36150200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr5:36136600-36150600	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr5:36136600-36150600	Weak transcription	HSMMtube	muscle
20	chr5:36139000-36150600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr5:36139600-36142800	Strong transcription	Adipose Nuclei	Adipose
22	chr5:36139600-36143200	Strong transcription	Primary T helper cells PMA-I stimulated	--
23	chr5:36139600-36143400	Strong transcription	Duodenum Smooth Muscle	Duodenum
24	chr5:36139800-36143200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr5:36139800-36143400	Strong transcription	Primary T helper cells fromperipheralblood	blood
26	chr5:36139800-36143400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
27	chr5:36139800-36143400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr5:36140000-36143200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr5:36140000-36146600	Weak transcription	HepG2	liver
30	chr5:36140200-36143000	Strong transcription	Fetal Muscle Trunk	muscle
31	chr5:36140200-36143600	Strong transcription	Primary B cells from cord blood	blood
32	chr5:36140400-36143400	Strong transcription	Primary neutrophils fromperipheralblood	blood
33	chr5:36140400-36143600	Strong transcription	Monocytes-CD14+_RO01746	blood
34	chr5:36140400-36150600	Weak transcription	NHLF	lung
35	chr5:36140600-36142800	Strong transcription	Fetal Intestine Large	intestine
36	chr5:36140600-36143200	Strong transcription	Primary B cells from peripheral blood	blood
37	chr5:36140600-36143400	Strong transcription	Fetal Brain Female	brain
38	chr5:36140600-36146400	Weak transcription	Fetal Intestine Small	intestine
39	chr5:36140600-36150400	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr5:36140600-36150600	Weak transcription	Cortex derived primary cultured neurospheres	brain
41	chr5:36140600-36150600	Weak transcription	Rectal Smooth Muscle	rectum
42	chr5:36140600-36150600	Weak transcription	Thymus	Thymus
43	chr5:36140600-36150800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr5:36140600-36150800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr5:36140600-36150800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr5:36140600-36150800	Weak transcription	Aorta	Aorta
47	chr5:36140600-36150800	Weak transcription	Brain Angular Gyrus	brain
48	chr5:36140600-36150800	Weak transcription	Gastric	stomach
49	chr5:36140600-36150800	Weak transcription	Small Intestine	intestine
50	chr5:36140600-36150800	Weak transcription	Spleen	Spleen

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