Variant report

Variant	rs610860
Chromosome Location	chr3:136052816-136052817
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:135913296..135916091-chr3:136051833..136053446,2	MCF-7	breast:
2	chr3:136050884..136053004-chr3:136057100..136060594,3	K562	blood:
3	chr3:136033614..136036060-chr3:136051639..136053164,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000174579	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs1145101	1.00[JPT][hapmap];0.86[YRI][hapmap];0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1154988	0.83[CEU][hapmap]
rs11715257	0.82[YRI][hapmap]
rs1279425	0.80[CEU][hapmap]
rs1279840	0.84[CEU][hapmap]
rs13068119	0.89[CEU][hapmap]
rs1711171	0.84[CEU][hapmap]
rs17252498	0.94[CEU][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs33999043	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs34154714	1.00[ASN][1000 genomes]
rs34498968	1.00[JPT][hapmap]
rs35087366	1.00[JPT][hapmap]
rs3821445	1.00[CEU][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4678428	0.84[CEU][hapmap]
rs483465	0.84[CEU][hapmap]
rs489398	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs503973	1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs548288	0.84[CEU][hapmap]
rs576771	0.84[CEU][hapmap]
rs606725	0.84[CEU][hapmap]
rs61789601	0.85[EUR][1000 genomes]
rs645040	0.88[CEU][hapmap]
rs684773	0.88[CEU][hapmap]
rs687339	0.88[CEU][hapmap]
rs696516	0.82[YRI][hapmap]
rs696517	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71336055	0.87[ASN][1000 genomes]
rs8045	0.89[CEU][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs866782	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9861150	1.00[YRI][hapmap]
rs9867368	0.80[AMR][1000 genomes]
rs9883916	0.89[CEU][hapmap];1.00[YRI][hapmap]

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	nsv869409	chr3:135649101-136164174	Strong transcription Genic enhancers Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv948461	chr3:135969755-136349636	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv4025	chr3:136017458-136065622	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS	Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv877519	chr3:136035737-136279390	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:135999800-136061200	Weak transcription	Hela-S3	cervix
2	chr3:136032800-136055400	Weak transcription	HUVEC	blood vessel
3	chr3:136039000-136072400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr3:136039200-136062400	Weak transcription	Fetal Heart	heart
5	chr3:136040400-136062800	Weak transcription	Stomach Mucosa	stomach
6	chr3:136040600-136061400	Weak transcription	Small Intestine	intestine
7	chr3:136042400-136058200	Weak transcription	Psoas Muscle	Psoas
8	chr3:136042400-136078800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
9	chr3:136042600-136053200	Weak transcription	Primary neutrophils fromperipheralblood	blood
10	chr3:136042600-136072600	Strong transcription	Dnd41	blood
11	chr3:136043400-136098600	Weak transcription	Fetal Brain Male	brain
12	chr3:136043600-136082000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
13	chr3:136043800-136070400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr3:136044800-136054600	Strong transcription	Brain Inferior Temporal Lobe	brain
15	chr3:136045200-136060800	Strong transcription	Liver	Liver
16	chr3:136045200-136062000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr3:136045600-136079200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
18	chr3:136046200-136060000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr3:136047600-136098000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
20	chr3:136047800-136068200	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr3:136047800-136074800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
22	chr3:136048000-136054200	Weak transcription	HMEC	breast
23	chr3:136048200-136053200	Weak transcription	Colon Smooth Muscle	Colon
24	chr3:136048200-136060200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
25	chr3:136048400-136062800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr3:136048800-136053000	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr3:136048800-136053200	Weak transcription	Right Ventricle	heart
28	chr3:136048800-136062600	Weak transcription	NHEK	skin
29	chr3:136049000-136056000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
30	chr3:136049000-136062800	Weak transcription	H9 Cell Line	embryonic stem cell
31	chr3:136050800-136054200	Strong transcription	Brain Hippocampus Middle	brain
32	chr3:136050800-136062800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr3:136051000-136054800	Strong transcription	Cortex derived primary cultured neurospheres	brain
34	chr3:136051000-136062200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr3:136051000-136062400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr3:136051000-136062800	Strong transcription	Adipose Nuclei	Adipose
37	chr3:136051000-136063600	Strong transcription	Fetal Thymus	thymus
38	chr3:136051000-136069800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr3:136051200-136063600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr3:136051400-136053400	Strong transcription	HepG2	liver
41	chr3:136051400-136054600	Strong transcription	Brain Angular Gyrus	brain
42	chr3:136051400-136055000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
43	chr3:136051600-136053000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr3:136051600-136054600	Genic enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
45	chr3:136051600-136055400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr3:136051600-136055600	Strong transcription	Fetal Intestine Small	intestine
47	chr3:136051600-136055600	Strong transcription	Fetal Stomach	stomach
48	chr3:136051600-136055600	Strong transcription	Sigmoid Colon	Sigmoid Colon
49	chr3:136051600-136055800	Strong transcription	Fetal Muscle Leg	muscle
50	chr3:136051600-136057000	Strong transcription	GM12878-XiMat	blood

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