Variant report

Variant	rs585022
Chromosome Location	chr6:149753304-149753305
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:20)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:20 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:149736139..149738247-chr6:149750968..149753957,2	K562	blood:
2	chr6:149748430..149751387-chr6:149751741..149754089,3	MCF-7	breast:
3	chr6:149749225..149751406-chr6:149752259..149754784,2	K562	blood:
4	chr6:149398184..149404330-chr6:149748783..149757211,17	MCF-7	breast:
5	chr6:149638278..149640828-chr6:149750311..149753449,4	MCF-7	breast:
6	chr6:149350092..149350652-chr6:149752991..149753790,4	MCF-7	breast:
7	chr6:149403286..149404899-chr6:149752639..149753736,6	MCF-7	breast:
8	chr10:123366642..123368236-chr6:149751907..149753798,2	MCF-7	breast:
9	chr6:149352390..149354385-chr6:149752598..149755216,2	MCF-7	breast:
10	chr6:149364299..149365300-chr6:149752858..149754111,6	K562	blood:
11	chr6:149517097..149517616-chr6:149753109..149753764,2	K562	blood:
12	chr6:149347837..149348431-chr6:149752868..149753657,2	MCF-7	breast:
13	chr6:149748841..149750725-chr6:149751621..149753759,2	K562	blood:
14	chr6:149378979..149381253-chr6:149751036..149753374,2	K562	blood:
15	chr6:149403053..149404232-chr6:149752839..149753842,8	K562	blood:
16	chr6:149511094..149511659-chr6:149753092..149753721,3	MCF-7	breast:
17	chr6:149335068..149337695-chr6:149751708..149753851,2	MCF-7	breast:
18	chr6:149349695..149350816-chr6:149752428..149753382,4	K562	blood:
19	chr6:149351119..149355583-chr6:149748923..149756337,13	MCF-7	breast:
20	chr6:149379587..149381868-chr6:149752319..149755254,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000236591	Chromatin interaction
ENSG00000055208	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs2143076	0.81[CEU][hapmap];0.83[CHB][hapmap];0.83[JPT][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2179367	0.94[EUR][1000 genomes]
rs2262617	0.98[EUR][1000 genomes]
rs2744432	0.82[AMR][1000 genomes]
rs2789488	0.82[JPT][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2789492	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs489551	0.81[EUR][1000 genomes]
rs4895788	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4895789	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs4897124	0.98[EUR][1000 genomes]
rs4897125	0.96[EUR][1000 genomes]
rs504985	0.91[CEU][hapmap];0.82[CHB][hapmap];0.82[JPT][hapmap]
rs506268	0.83[CHB][hapmap]
rs511100	0.81[EUR][1000 genomes]
rs514839	0.91[CEU][hapmap];0.82[CHB][hapmap];0.82[JPT][hapmap]
rs521845	0.91[CEU][hapmap];0.82[CHB][hapmap];0.82[JPT][hapmap];0.81[EUR][1000 genomes]
rs536203	0.87[CEU][hapmap];0.82[CHB][hapmap];0.83[JPT][hapmap]
rs537354	0.87[CEU][hapmap];0.82[CHB][hapmap];0.83[JPT][hapmap]
rs540538	0.87[CEU][hapmap];0.83[CHB][hapmap];0.83[JPT][hapmap]
rs544947	0.81[EUR][1000 genomes]
rs560051	0.87[CEU][hapmap];0.83[CHB][hapmap];0.83[JPT][hapmap]
rs562428	0.87[CEU][hapmap];0.83[CHB][hapmap];0.83[JPT][hapmap]
rs577001	0.87[CEU][hapmap];0.86[CHB][hapmap];0.83[JPT][hapmap]
rs579789	0.83[CHB][hapmap];0.83[JPT][hapmap];0.81[EUR][1000 genomes]
rs628488	0.81[EUR][1000 genomes]
rs638407	0.92[CEU][hapmap];0.83[CHB][hapmap];0.83[JPT][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs652807	0.91[CEU][hapmap];0.82[CHB][hapmap];0.82[JPT][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6570965	0.80[CEU][hapmap];0.82[CHB][hapmap];0.82[JPT][hapmap]
rs9285519	0.92[CEU][hapmap];0.83[CHB][hapmap];0.83[JPT][hapmap];0.82[EUR][1000 genomes]
rs9322178	0.92[CEU][hapmap];0.83[CHB][hapmap];0.83[JPT][hapmap];0.82[EUR][1000 genomes]
rs9373589	0.91[CEU][hapmap];0.82[CHB][hapmap];0.82[JPT][hapmap];0.81[EUR][1000 genomes]
rs9373592	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9377212	0.81[EUR][1000 genomes]
rs9390677	0.95[CEU][hapmap];0.85[CHB][hapmap];0.82[JPT][hapmap];0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv522875	chr6:149643709-149762537	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	nsv530444	chr6:149654540-149848997	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv517606	chr6:149744632-149755695	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv470866	chr6:149744632-149806552	Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv5533	chr6:149748047-149793072	Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149746800-149762000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:149749400-149753400	Weak transcription	HSMMtube	muscle
3	chr6:149749800-149764400	Weak transcription	Right Atrium	heart
4	chr6:149752800-149753400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr6:149752800-149753600	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr6:149752800-149753600	Enhancers	Primary T killer memory cells from peripheral blood	blood
7	chr6:149752800-149753600	Enhancers	Liver	Liver
8	chr6:149752800-149754400	Enhancers	Fetal Thymus	thymus
9	chr6:149753000-149753400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr6:149753000-149753400	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr6:149753000-149753400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr6:149753000-149753400	Enhancers	Primary monocytes fromperipheralblood	blood
13	chr6:149753000-149753400	Flanking Active TSS	Primary T cells fromperipheralblood	blood
14	chr6:149753000-149753400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
15	chr6:149753000-149753400	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
16	chr6:149753000-149753400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
17	chr6:149753000-149753400	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
18	chr6:149753000-149753400	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
19	chr6:149753000-149753400	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
20	chr6:149753000-149753400	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr6:149753000-149753400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
22	chr6:149753000-149753400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr6:149753000-149753400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr6:149753000-149753400	Enhancers	Muscle Satellite Cultured Cells	--
25	chr6:149753000-149753400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr6:149753000-149753400	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
27	chr6:149753000-149753400	Active TSS	Brain Cingulate Gyrus	brain
28	chr6:149753000-149753400	Active TSS	Brain Hippocampus Middle	brain
29	chr6:149753000-149753400	Enhancers	Duodenum Mucosa	Duodenum
30	chr6:149753000-149753400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
31	chr6:149753000-149753400	Enhancers	Left Ventricle	heart
32	chr6:149753000-149753400	Enhancers	Placenta Amnion	Placenta Amnion
33	chr6:149753000-149753400	Active TSS	Rectal Smooth Muscle	rectum
34	chr6:149753000-149753400	Enhancers	Skeletal Muscle Female	skeletal muscle
35	chr6:149753000-149753400	Flanking Active TSS	Dnd41	blood
36	chr6:149753000-149753400	Enhancers	Monocytes-CD14+_RO01746	blood
37	chr6:149753000-149753600	Enhancers	ES-I3 Cell Line	embryonic stem cell
38	chr6:149753000-149753600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr6:149753000-149753600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr6:149753000-149753600	Enhancers	Primary B cells from peripheral blood	blood
41	chr6:149753000-149753600	Enhancers	Primary T cells from cord blood	blood
42	chr6:149753000-149753600	Enhancers	Primary hematopoietic stem cells	blood
43	chr6:149753000-149753600	Enhancers	Primary hematopoietic stem cells short term culture	blood
44	chr6:149753000-149753600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr6:149753000-149753600	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr6:149753000-149753600	Bivalent Enhancer	Adipose Nuclei	Adipose
47	chr6:149753000-149753600	Flanking Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
48	chr6:149753000-149753600	Enhancers	Brain Substantia Nigra	brain
49	chr6:149753000-149753600	Enhancers	Fetal Intestine Large	intestine
50	chr6:149753000-149753600	Enhancers	Fetal Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links