Variant report

Variant	rs6764439
Chromosome Location	chr3:155523195-155523196
allele	C/T
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:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:155522507..155525053-chr3:155587874..155590161,2	MCF-7	breast:
2	chr3:155476567..155478417-chr3:155522248..155524245,2	MCF-7	breast:
3	chr3:155520264..155525290-chr3:155586627..155590296,8	K562	blood:
4	chr3:155522731..155527439-chr3:155568712..155573851,7	MCF-7	breast:
5	chr3:155520823..155524412-chr3:155585049..155590112,5	MCF-7	breast:
6	chr3:155521670..155525457-chr3:155569550..155572694,3	MCF-7	breast:
7	chr3:155522613..155525345-chr3:155572139..155575204,3	K562	blood:
8	chr3:155522875..155525089-chr3:155569917..155571770,3	K562	blood:
9	chr3:155522036..155526613-chr3:155586597..155592084,8	K562	blood:

No data

Variant related genes	Relation type
ENSG00000169359	Chromatin interaction
ENSG00000241307	Chromatin interaction
ENSG00000163655	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10936019	0.84[EUR][1000 genomes]
rs11712034	0.82[CEU][hapmap];0.87[EUR][1000 genomes]
rs168586	0.91[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.88[ASN][1000 genomes]
rs168587	1.00[CEU][hapmap];0.91[CHB][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35245064	0.93[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs35293225	0.87[EUR][1000 genomes]
rs358701	0.86[EUR][1000 genomes]
rs358716	0.85[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs358717	0.81[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs358718	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs358730	0.83[CEU][hapmap];0.87[EUR][1000 genomes]
rs358733	0.82[CEU][hapmap];0.87[EUR][1000 genomes]
rs358735	0.87[EUR][1000 genomes]
rs389893	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs392068	0.86[EUR][1000 genomes]
rs398320	0.86[EUR][1000 genomes]
rs416063	0.87[CEU][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs423067	0.88[EUR][1000 genomes]
rs4434110	0.85[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs4679757	0.84[CEU][hapmap]
rs6776241	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6804188	0.82[CEU][hapmap];0.87[EUR][1000 genomes]
rs7637461	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9812038	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877680	chr3:155438022-155723064	Active TSS Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv1014031	chr3:155481097-155524777	Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
3	nsv999641	chr3:155481097-155534616	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
4	esv2753744	chr3:155487298-155707298	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155487600-155524200	Weak transcription	Fetal Heart	heart
2	chr3:155488200-155523200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr3:155489000-155523200	Weak transcription	Thymus	Thymus
4	chr3:155491600-155523200	Weak transcription	Rectal Smooth Muscle	rectum
5	chr3:155494400-155523600	Weak transcription	Small Intestine	intestine
6	chr3:155500400-155523200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr3:155506800-155523200	Weak transcription	Fetal Kidney	kidney
8	chr3:155508800-155523200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr3:155509000-155523400	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr3:155509000-155523400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr3:155509200-155523200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr3:155509200-155523200	Weak transcription	Brain Germinal Matrix	brain
13	chr3:155509400-155523200	Weak transcription	Fetal Muscle Trunk	muscle
14	chr3:155509600-155523200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
15	chr3:155509600-155523200	Weak transcription	Esophagus	oesophagus
16	chr3:155509600-155523400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr3:155509800-155523200	Weak transcription	Aorta	Aorta
18	chr3:155509800-155523200	Weak transcription	Right Ventricle	heart
19	chr3:155509800-155523400	Weak transcription	Fetal Lung	lung
20	chr3:155510000-155523200	Weak transcription	HUES6 Cell Line	embryonic stem cell
21	chr3:155510000-155523200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
22	chr3:155510000-155523200	Weak transcription	Gastric	stomach
23	chr3:155510000-155523400	Weak transcription	Fetal Stomach	stomach
24	chr3:155510200-155523200	Weak transcription	Cortex derived primary cultured neurospheres	brain
25	chr3:155510200-155523200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr3:155510200-155523200	Weak transcription	Left Ventricle	heart
27	chr3:155510400-155523200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr3:155512000-155523200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr3:155515000-155523200	Weak transcription	Fetal Brain Female	brain
30	chr3:155515000-155523400	Weak transcription	Fetal Muscle Leg	muscle
31	chr3:155515200-155523200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr3:155515600-155523200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr3:155515800-155523600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
34	chr3:155518200-155523200	Weak transcription	Primary hematopoietic stem cells	blood
35	chr3:155518400-155523200	Weak transcription	Ovary	ovary
36	chr3:155521200-155523200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
37	chr3:155521800-155523200	Enhancers	Fetal Intestine Large	intestine
38	chr3:155522400-155523200	Enhancers	Liver	Liver
39	chr3:155522400-155523400	Flanking Active TSS	HepG2	liver
40	chr3:155522600-155523200	Enhancers	Primary T helper cells PMA-I stimulated	--
41	chr3:155522600-155523200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
42	chr3:155522600-155523200	Enhancers	Brain Cingulate Gyrus	brain
43	chr3:155522600-155523600	Flanking Active TSS	Dnd41	blood
44	chr3:155522800-155523200	Active TSS	Primary T regulatory cells fromperipheralblood	blood
45	chr3:155522800-155523200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr3:155522800-155523200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
47	chr3:155522800-155523200	Enhancers	Spleen	Spleen
48	chr3:155522800-155523200	Enhancers	Hela-S3	cervix
49	chr3:155522800-155523400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
50	chr3:155523000-155523200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived

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