Variant report

Variant	rs9489537
Chromosome Location	chr6:119220748-119220749
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:119220702..119224795-chr6:119249246..119252141,5	K562	blood:
2	chr6:119217885..119221356-chr6:119243903..119247955,3	K562	blood:
3	chr6:119220051..119223232-chr6:119226252..119229416,3	MCF-7	breast:
4	chr6:119218879..119223837-chr6:119239300..119242721,4	K562	blood:
5	chr6:119219883..119221468-chr6:119256004..119257600,2	MCF-7	breast:
6	chr6:119120439..119121965-chr6:119219112..119221592,2	K562	blood:
7	chr6:119220162..119223969-chr6:119225071..119229452,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000111877	Chromatin interaction

Extended variants
information (count: 88 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs10080855	0.95[ASN][1000 genomes]
rs1087453	0.95[ASN][1000 genomes]
rs1087454	0.95[ASN][1000 genomes]
rs1087455	0.93[ASN][1000 genomes]
rs11153785	0.97[ASN][1000 genomes]
rs12189950	0.93[CHB][hapmap]
rs12191490	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12191819	1.00[CHB][hapmap];0.96[CHD][hapmap];0.82[JPT][hapmap];0.80[MKK][hapmap];0.97[ASN][1000 genomes]
rs12194515	0.97[ASN][1000 genomes]
rs12195334	0.93[CHB][hapmap];0.82[CHD][hapmap]
rs12196440	0.95[ASN][1000 genomes]
rs12197931	1.00[CHB][hapmap];1.00[CHD][hapmap];0.82[JPT][hapmap];0.97[ASN][1000 genomes]
rs12200499	0.97[ASN][1000 genomes]
rs12203353	0.83[ASN][1000 genomes]
rs12203542	0.83[ASN][1000 genomes]
rs12204929	0.93[CHB][hapmap]
rs12206826	1.00[ASW][hapmap];1.00[CEU][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[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12207299	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs12210027	0.83[ASN][1000 genomes]
rs12212179	0.89[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs12214434	0.85[AMR][1000 genomes]
rs12216519	0.83[ASN][1000 genomes]
rs1321836	0.96[ASN][1000 genomes]
rs1407205	1.00[CHB][hapmap];0.82[JPT][hapmap];0.97[ASN][1000 genomes]
rs1407206	0.89[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1539434	0.84[ASN][1000 genomes]
rs1775619	0.93[CHB][hapmap];0.88[CHD][hapmap];0.81[JPT][hapmap]
rs2295709	0.82[CHB][hapmap]
rs284914	1.00[CHB][hapmap];1.00[CHD][hapmap];0.82[JPT][hapmap];0.89[ASN][1000 genomes]
rs284915	0.87[ASN][1000 genomes]
rs284916	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs284918	0.91[ASN][1000 genomes]
rs284920	0.91[ASN][1000 genomes]
rs376225	0.83[ASN][1000 genomes]
rs3798594	0.97[ASN][1000 genomes]
rs3798595	1.00[CHB][hapmap];1.00[CHD][hapmap];0.82[JPT][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];0.89[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs3798599	0.89[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs409849	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs41292550	0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs41292554	0.97[ASN][1000 genomes]
rs4946384	1.00[CHB][hapmap];0.82[JPT][hapmap];0.85[ASN][1000 genomes]
rs56794995	0.91[ASN][1000 genomes]
rs56895036	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs6910327	0.80[CHB][hapmap]
rs6910850	0.80[CHB][hapmap]
rs6935641	0.97[ASN][1000 genomes]
rs6937499	0.84[ASN][1000 genomes]
rs706971	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs706978	0.93[CHB][hapmap];0.88[CHD][hapmap]
rs72966851	0.97[ASN][1000 genomes]
rs72966873	0.95[ASN][1000 genomes]
rs72966896	0.95[ASN][1000 genomes]
rs72970448	0.93[ASN][1000 genomes]
rs768995	0.89[CHB][hapmap];0.97[ASN][1000 genomes]
rs768996	1.00[CHB][hapmap];0.82[JPT][hapmap];0.97[ASN][1000 genomes]
rs7742473	0.87[LWK][hapmap];0.82[YRI][hapmap]
rs7745460	0.93[CHB][hapmap];0.82[CHD][hapmap]
rs794259	0.85[CHB][hapmap];0.86[JPT][hapmap]
rs794606	0.93[ASN][1000 genomes]
rs794607	1.00[CHB][hapmap];0.96[CHD][hapmap];0.82[JPT][hapmap];0.93[ASN][1000 genomes]
rs794608	0.93[ASN][1000 genomes]
rs794611	0.93[ASN][1000 genomes]
rs797017	1.00[CHB][hapmap];0.93[ASN][1000 genomes]
rs811201	1.00[CHB][hapmap];0.82[JPT][hapmap];0.93[ASN][1000 genomes]
rs9320673	0.84[ASN][1000 genomes]
rs9374757	0.83[ASN][1000 genomes]
rs9387609	0.83[ASN][1000 genomes]
rs9481862	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9481867	0.89[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9481868	0.89[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9481869	0.97[ASN][1000 genomes]
rs9481870	1.00[CHB][hapmap];0.82[JPT][hapmap];0.97[ASN][1000 genomes]
rs9481871	1.00[CHB][hapmap];0.97[ASN][1000 genomes]
rs9481872	0.97[ASN][1000 genomes]
rs9481877	0.93[ASN][1000 genomes]
rs9481878	0.93[ASN][1000 genomes]
rs9489531	0.83[ASN][1000 genomes]
rs9489535	1.00[CHB][hapmap];0.82[JPT][hapmap];0.97[ASN][1000 genomes]
rs9489536	1.00[CHB][hapmap];1.00[CHD][hapmap];0.82[JPT][hapmap];0.89[MKK][hapmap];0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9489539	0.97[ASN][1000 genomes]
rs9489540	0.97[ASN][1000 genomes]
rs9489541	0.95[ASN][1000 genomes]
rs9489543	1.00[CHB][hapmap];0.86[JPT][hapmap];0.97[ASN][1000 genomes]
rs9489544	1.00[CHB][hapmap];0.95[CHD][hapmap];0.82[JPT][hapmap];0.97[ASN][1000 genomes]
rs9489547	0.95[ASN][1000 genomes]
rs962393	0.80[CHB][hapmap]

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	nsv1020405	chr6:118786586-119241006	ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1023826	chr6:119026481-119221408	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:119216600-119224400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr6:119216600-119233800	Weak transcription	Lung	lung
3	chr6:119216600-119236600	Weak transcription	Gastric	stomach
4	chr6:119216600-119243800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr6:119216800-119230600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr6:119216800-119232400	Weak transcription	Colonic Mucosa	Colon
7	chr6:119216800-119232600	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr6:119216800-119233200	Weak transcription	Aorta	Aorta
9	chr6:119216800-119235800	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr6:119217000-119223200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
11	chr6:119217000-119225400	Weak transcription	Stomach Smooth Muscle	stomach
12	chr6:119217000-119242200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr6:119217600-119221600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
14	chr6:119217600-119221800	Enhancers	Ovary	ovary
15	chr6:119217600-119222600	Strong transcription	Fetal Muscle Trunk	muscle
16	chr6:119217800-119221000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr6:119217800-119221000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
18	chr6:119217800-119221400	Weak transcription	Adipose Nuclei	Adipose
19	chr6:119217800-119221600	Enhancers	Primary T helper cells fromperipheralblood	blood
20	chr6:119217800-119221800	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr6:119217800-119222400	Weak transcription	NHDF-Ad	bronchial
22	chr6:119217800-119222600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr6:119217800-119222800	Weak transcription	Rectal Mucosa Donor 31	rectum
24	chr6:119217800-119223000	Weak transcription	Fetal Kidney	kidney
25	chr6:119217800-119224200	Weak transcription	Primary neutrophils fromperipheralblood	blood
26	chr6:119217800-119224400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr6:119217800-119224600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr6:119217800-119228400	Weak transcription	Rectal Smooth Muscle	rectum
29	chr6:119217800-119236200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
30	chr6:119218000-119220800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr6:119218000-119220800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr6:119218000-119221000	Weak transcription	HSMMtube	muscle
33	chr6:119218000-119222000	Genic enhancers	Primary T cells from cord blood	blood
34	chr6:119218200-119222400	Weak transcription	Primary monocytes fromperipheralblood	blood
35	chr6:119218200-119229200	Weak transcription	NHLF	lung
36	chr6:119218400-119221800	Weak transcription	Primary B cells from cord blood	blood
37	chr6:119218600-119221800	Genic enhancers	K562	blood
38	chr6:119218600-119247000	Strong transcription	Fetal Thymus	thymus
39	chr6:119218800-119221000	Genic enhancers	iPS-20b Cell Line	embryonic stem cell
40	chr6:119218800-119221600	Genic enhancers	HUES6 Cell Line	embryonic stem cell
41	chr6:119218800-119222200	Genic enhancers	Primary T helper cells PMA-I stimulated	--
42	chr6:119218800-119237200	Strong transcription	Primary hematopoietic stem cells	blood
43	chr6:119219000-119222000	Enhancers	Fetal Heart	heart
44	chr6:119219000-119222000	Genic enhancers	HepG2	liver
45	chr6:119219000-119222200	Enhancers	Primary T killer memory cells from peripheral blood	blood
46	chr6:119219000-119222600	Strong transcription	A549	lung
47	chr6:119219000-119222800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr6:119219200-119221000	Genic enhancers	Primary T regulatory cells fromperipheralblood	blood
49	chr6:119219200-119221800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr6:119219200-119225400	Weak transcription	Small Intestine	intestine

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