Variant report

Variant	rs1970304
Chromosome Location	chr6:146196545-146196546
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	chr6:146195474..146197660-chr6:146199765..146202378,2	MCF-7	breast:
2	chr6:146152448..146155093-chr6:146194869..146196693,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GRM1-3	chr6:146195888-146199214	NONHSAT115414

Extended variants
information (count: 38 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs17054153	0.94[ASN][1000 genomes]
rs17075370	0.94[ASN][1000 genomes]
rs17075385	0.94[ASN][1000 genomes]
rs17075389	0.94[ASN][1000 genomes]
rs17075400	0.94[ASN][1000 genomes]
rs17075404	0.94[ASN][1000 genomes]
rs17075411	0.94[ASN][1000 genomes]
rs17075414	0.94[ASN][1000 genomes]
rs17075446	1.00[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17075465	1.00[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17075499	1.00[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17075501	1.00[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17075511	1.00[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs17075515	1.00[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs17075527	1.00[AFR][1000 genomes]
rs17075530	1.00[AFR][1000 genomes]
rs17075544	1.00[AFR][1000 genomes]
rs17075546	1.00[AFR][1000 genomes]
rs17075548	1.00[AFR][1000 genomes]
rs17075588	1.00[AFR][1000 genomes]
rs17075604	1.00[AFR][1000 genomes]
rs17075636	1.00[AFR][1000 genomes]
rs17075661	1.00[AFR][1000 genomes]
rs17075663	1.00[AFR][1000 genomes]
rs17075666	1.00[AFR][1000 genomes]
rs17725045	0.82[ASN][1000 genomes]
rs17725081	0.82[ASN][1000 genomes]
rs17725112	0.82[ASN][1000 genomes]
rs17725154	0.82[ASN][1000 genomes]
rs17798033	0.82[ASN][1000 genomes]
rs17798183	0.88[ASN][1000 genomes]
rs17798189	0.88[ASN][1000 genomes]
rs17798207	0.88[ASN][1000 genomes]
rs6570721	0.88[ASN][1000 genomes]
rs73579444	0.82[ASN][1000 genomes]
rs999859	0.94[ASN][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	nsv1034226	chr6:146071068-146306942	Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv830835	chr6:146145148-146287473	Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:146172200-146202400	Weak transcription	Adipose Nuclei	Adipose
2	chr6:146177600-146204200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr6:146182400-146196600	Weak transcription	Fetal Heart	heart
4	chr6:146185200-146212200	Weak transcription	Primary neutrophils fromperipheralblood	blood
5	chr6:146186400-146213200	Weak transcription	Brain Anterior Caudate	brain
6	chr6:146186800-146199400	Weak transcription	Brain Hippocampus Middle	brain
7	chr6:146188000-146196600	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr6:146188000-146201400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr6:146188000-146218800	Weak transcription	Right Ventricle	heart
10	chr6:146188400-146201200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr6:146188800-146209000	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr6:146189200-146202400	Weak transcription	Thymus	Thymus
13	chr6:146189400-146201400	Weak transcription	Dnd41	blood
14	chr6:146189400-146202800	Weak transcription	Stomach Smooth Muscle	stomach
15	chr6:146189400-146214400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chr6:146189600-146211800	Weak transcription	Primary B cells from peripheral blood	blood
17	chr6:146193400-146207600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr6:146193800-146201600	Weak transcription	HSMM	muscle
19	chr6:146194000-146211800	Weak transcription	Primary hematopoietic stem cells	blood
20	chr6:146194200-146202400	Weak transcription	Primary T cells from cord blood	blood
21	chr6:146194400-146197200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr6:146194800-146212400	Weak transcription	HUVEC	blood vessel
23	chr6:146195000-146209400	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr6:146196000-146198200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr6:146196000-146199400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr6:146196200-146197400	Enhancers	Monocytes-CD14+_RO01746	blood
27	chr6:146196200-146198000	Enhancers	Primary monocytes fromperipheralblood	blood
28	chr6:146196200-146198200	Enhancers	HSMMtube	muscle
29	chr6:146196200-146210000	Weak transcription	Fetal Brain Male	brain
30	chr6:146196400-146196600	Enhancers	Aorta	Aorta
31	chr6:146196400-146196600	Enhancers	Fetal Muscle Leg	muscle
32	chr6:146196400-146196600	Enhancers	Left Ventricle	heart
33	chr6:146196400-146196800	Enhancers	NHDF-Ad	bronchial
34	chr6:146196400-146197000	Enhancers	Primary hematopoietic stem cells short term culture	blood
35	chr6:146196400-146197600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr6:146196400-146197600	Enhancers	Ovary	ovary
37	chr6:146196400-146197800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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