Variant report

Variant	rs6930172
Chromosome Location	chr6:56689646-56689647
allele	C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:56679539..56681152-chr6:56687972..56690917,2	MCF-7	breast:

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs13220618	0.80[AFR][1000 genomes]
rs35081015	0.82[AFR][1000 genomes]
rs4415160	0.82[AFR][1000 genomes]
rs4532444	0.82[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv491933	chr6:56177722-57171010	Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv934026	chr6:56382056-57184218	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
3	nsv533050	chr6:56504480-57297586	Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Flanking 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 miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv1021651	chr6:56569444-56966319	Flanking Active TSS Enhancers Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	nsv538228	chr6:56569444-56966319	Active TSS Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
6	nsv1034418	chr6:56651245-56700449	Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:56674200-56692400	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr6:56674200-56703000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr6:56679800-56693400	Weak transcription	Rectal Smooth Muscle	rectum
4	chr6:56679800-56693400	Weak transcription	NH-A	brain
5	chr6:56680600-56690400	Weak transcription	HSMMtube	muscle
6	chr6:56681400-56692600	Weak transcription	Osteobl	bone
7	chr6:56681400-56702200	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr6:56681400-56702200	Weak transcription	NHDF-Ad	bronchial
9	chr6:56681600-56702400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr6:56683000-56692600	Weak transcription	Right Ventricle	heart
11	chr6:56684000-56690600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr6:56684000-56703800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr6:56684200-56705200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
14	chr6:56685200-56690400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr6:56685600-56700000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr6:56686200-56690400	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr6:56686200-56690400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr6:56686200-56696200	Weak transcription	HSMM	muscle
19	chr6:56686400-56690000	Weak transcription	Fetal Stomach	stomach
20	chr6:56686400-56690400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr6:56686400-56690400	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr6:56686400-56692600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
23	chr6:56686400-56692600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr6:56686400-56692800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr6:56686400-56692800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr6:56686400-56693000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr6:56686400-56695800	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr6:56686400-56698800	Weak transcription	Left Ventricle	heart
29	chr6:56686600-56690400	Weak transcription	Fetal Heart	heart
30	chr6:56686600-56692600	Weak transcription	Brain Cingulate Gyrus	brain
31	chr6:56686800-56690400	Weak transcription	Brain Hippocampus Middle	brain
32	chr6:56686800-56690600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr6:56687200-56690400	Weak transcription	HUES64 Cell Line	embryonic stem cell
34	chr6:56687200-56690400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
35	chr6:56687200-56690400	Weak transcription	Brain Inferior Temporal Lobe	brain
36	chr6:56687200-56690400	Weak transcription	Skeletal Muscle Male	skeletal muscle
37	chr6:56687200-56692600	Weak transcription	Brain Angular Gyrus	brain
38	chr6:56687200-56692600	Weak transcription	Skeletal Muscle Female	skeletal muscle
39	chr6:56687200-56692600	Weak transcription	A549	lung
40	chr6:56687200-56702600	Weak transcription	NHLF	lung
41	chr6:56687400-56690400	Weak transcription	Brain Anterior Caudate	brain
42	chr6:56687400-56690600	Weak transcription	Psoas Muscle	Psoas
43	chr6:56687400-56692600	Weak transcription	Brain Substantia Nigra	brain
44	chr6:56688600-56690600	Weak transcription	GM12878-XiMat	blood
45	chr6:56689600-56692400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr6:56689600-56692800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr6:56689600-56698000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links