Variant report

Variant	rs6570374
Chromosome Location	chr6:140087212-140087213
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:139691548..139696991-chr6:140085992..140088772,6	K562	blood:
2	chr6:139695341..139697073-chr6:140085374..140087586,2	MCF-7	breast:
3	chr6:140086666..140088704-chr6:140112529..140114998,2	K562	blood:
4	chr6:139694311..139697020-chr6:140086703..140089161,2	K562	blood:
5	chr6:139694058..139697860-chr6:140083167..140088670,5	MCF-7	breast:
6	chr6:139799627..139801775-chr6:140085865..140087472,2	K562	blood:

Variant related genes	Relation type
ENSG00000164442	Chromatin interaction

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10499213	0.89[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10499214	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11962730	0.81[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs11963532	0.97[ASN][1000 genomes]
rs11964275	0.94[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11965819	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12055436	0.81[CHB][hapmap];0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs12055472	0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs12055843	0.86[ASN][1000 genomes]
rs12662206	0.89[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs12664473	0.89[CHB][hapmap];0.94[JPT][hapmap];0.97[ASN][1000 genomes]
rs17069206	0.88[JPT][hapmap]
rs17069225	0.87[CHB][hapmap];0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs1936210	0.88[ASN][1000 genomes]
rs1936214	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2096283	0.89[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs2096284	0.81[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs2154032	0.94[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2185923	0.87[ASN][1000 genomes]
rs2327993	0.87[ASN][1000 genomes]
rs4520026	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4535566	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4896488	0.80[AMR][1000 genomes]
rs55764205	0.86[ASN][1000 genomes]
rs55966840	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60052799	0.80[AMR][1000 genomes]
rs60350063	0.97[ASN][1000 genomes]
rs60758082	0.86[ASN][1000 genomes]
rs6570372	0.88[ASN][1000 genomes]
rs6570373	0.88[ASN][1000 genomes]
rs6901783	0.94[CEU][hapmap];0.94[JPT][hapmap];0.82[EUR][1000 genomes]
rs6905478	0.88[CEU][hapmap];0.88[CHB][hapmap];0.94[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6911905	0.82[AMR][1000 genomes]
rs6933318	0.94[CEU][hapmap];0.94[JPT][hapmap];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6933569	0.83[AMR][1000 genomes]
rs73556090	0.87[ASN][1000 genomes]
rs73558032	0.97[ASN][1000 genomes]
rs73775693	0.82[AMR][1000 genomes]
rs7743796	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7752001	0.88[CHB][hapmap];0.88[JPT][hapmap];0.81[YRI][hapmap];0.87[ASN][1000 genomes]
rs7752323	0.88[ASN][1000 genomes]
rs7756866	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7769567	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7772473	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7774968	0.94[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7776193	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9321752	0.85[ASN][1000 genomes]
rs9373246	0.82[CHB][hapmap];0.88[JPT][hapmap];0.87[ASN][1000 genomes]
rs9373247	0.89[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9373248	0.89[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9376452	0.88[JPT][hapmap]
rs9376457	0.88[ASN][1000 genomes]
rs9385874	0.94[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9385875	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9385876	0.83[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9389715	0.88[ASN][1000 genomes]
rs9389717	0.87[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9399292	0.88[JPT][hapmap]
rs9403113	0.87[ASN][1000 genomes]
rs9403114	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9403115	0.94[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9403116	0.82[CHB][hapmap];1.00[JPT][hapmap];0.97[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	nsv869066	chr6:139777114-140639695	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
2	nsv830820	chr6:140059279-140255292	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
3	nsv1017015	chr6:140084137-140300565	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:140073000-140089400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr6:140079800-140090400	Weak transcription	Aorta	Aorta
3	chr6:140082400-140089400	Weak transcription	Psoas Muscle	Psoas
4	chr6:140083200-140087400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr6:140083200-140088200	Enhancers	HSMM	muscle
6	chr6:140083400-140088200	Enhancers	HSMMtube	muscle
7	chr6:140083400-140090200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr6:140083600-140087800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr6:140083600-140087800	Enhancers	Hela-S3	cervix
10	chr6:140083600-140087800	Enhancers	HUVEC	blood vessel
11	chr6:140083600-140088200	Enhancers	K562	blood
12	chr6:140083800-140087600	Enhancers	NH-A	brain
13	chr6:140083800-140087800	Enhancers	NHLF	lung
14	chr6:140084000-140089400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr6:140084600-140087600	Enhancers	HMEC	breast
16	chr6:140085000-140087600	Enhancers	Rectal Smooth Muscle	rectum
17	chr6:140085000-140087800	Enhancers	Colon Smooth Muscle	Colon
18	chr6:140085000-140088000	Enhancers	Pancreatic Islets	Pancreatic Islet
19	chr6:140085200-140087400	Enhancers	Placenta Amnion	Placenta Amnion
20	chr6:140085200-140087600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr6:140085200-140087800	Enhancers	Duodenum Smooth Muscle	Duodenum
22	chr6:140085200-140087800	Enhancers	Stomach Mucosa	stomach
23	chr6:140085400-140087400	Enhancers	HUES64 Cell Line	embryonic stem cell
24	chr6:140085600-140087800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr6:140085600-140087800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr6:140085800-140087600	Enhancers	Skeletal Muscle Female	skeletal muscle
27	chr6:140085800-140087600	Enhancers	Osteobl	bone
28	chr6:140086000-140089400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr6:140086000-140092200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
30	chr6:140086000-140099400	Weak transcription	Ovary	ovary
31	chr6:140086000-140101000	Weak transcription	Left Ventricle	heart
32	chr6:140086200-140089400	Weak transcription	Placenta	Placenta
33	chr6:140086400-140087400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr6:140086400-140087400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
35	chr6:140086400-140087800	Enhancers	Muscle Satellite Cultured Cells	--
36	chr6:140086400-140088200	Enhancers	NHDF-Ad	bronchial
37	chr6:140086400-140089600	Weak transcription	HUES6 Cell Line	embryonic stem cell
38	chr6:140086400-140097000	Weak transcription	Fetal Heart	heart
39	chr6:140086600-140087400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
40	chr6:140086600-140087400	Enhancers	HepG2	liver
41	chr6:140086600-140089600	Weak transcription	Stomach Smooth Muscle	stomach
42	chr6:140086800-140087800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr6:140087000-140087400	Flanking Active TSS	A549	lung
44	chr6:140087200-140088000	Weak transcription	Skeletal Muscle Male	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links