Variant report

Variant	rs17105829
Chromosome Location	chr14:69012905-69012906
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr14:69012905..69014587-chr14:69260400..69263200,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000185650	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10130177	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10134240	0.94[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10137367	0.94[CEU][hapmap];1.00[CHB][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10147979	0.94[CEU][hapmap];1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10148391	0.94[CEU][hapmap];1.00[CHB][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10483810	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs10483811	0.94[CEU][hapmap];1.00[CHB][hapmap];0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10483814	1.00[CHB][hapmap]
rs11849344	0.94[CEU][hapmap];1.00[CHB][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17105810	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17105812	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[YRI][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17105826	0.85[YRI][hapmap]
rs17105828	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17829180	1.00[CHB][hapmap]
rs17829192	1.00[CHB][hapmap]
rs28377700	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2842339	1.00[CHB][hapmap]
rs28454359	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28492919	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28558877	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs28671277	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59404246	1.00[ASN][1000 genomes]
rs6573841	0.83[CEU][hapmap];0.91[EUR][1000 genomes]
rs72727502	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72729521	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8016149	0.90[CEU][hapmap];0.88[EUR][1000 genomes]
rs8017678	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9323515	0.94[CEU][hapmap];1.00[CHB][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869154	chr14:68366754-69041768	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	nsv832822	chr14:68874640-69060272	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv516239	chr14:69010690-69025870	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:69002400-69016600	Weak transcription	Gastric	stomach
2	chr14:69005000-69013400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr14:69005000-69015000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr14:69006000-69014600	Enhancers	NHDF-Ad	bronchial
5	chr14:69006400-69013200	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr14:69006400-69013800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr14:69006800-69013800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr14:69006800-69014200	Weak transcription	Brain Substantia Nigra	brain
9	chr14:69006800-69014400	Weak transcription	Brain Hippocampus Middle	brain
10	chr14:69006800-69014600	Weak transcription	Brain Angular Gyrus	brain
11	chr14:69007200-69013400	Weak transcription	Right Ventricle	heart
12	chr14:69007400-69013600	Weak transcription	Fetal Heart	heart
13	chr14:69007800-69013800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr14:69007800-69014000	Weak transcription	Brain Anterior Caudate	brain
15	chr14:69008000-69013800	Enhancers	HMEC	breast
16	chr14:69008000-69013800	Enhancers	HSMM	muscle
17	chr14:69008200-69013400	Weak transcription	Ovary	ovary
18	chr14:69008400-69013600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr14:69008400-69013600	Weak transcription	Fetal Kidney	kidney
20	chr14:69008400-69013800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr14:69008400-69014200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr14:69009000-69013400	Enhancers	NHEK	skin
23	chr14:69009000-69013800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr14:69009000-69023600	Enhancers	Fetal Muscle Leg	muscle
25	chr14:69009200-69013400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr14:69009200-69016600	Enhancers	Colon Smooth Muscle	Colon
27	chr14:69009400-69013400	Enhancers	Rectal Smooth Muscle	rectum
28	chr14:69009400-69017600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr14:69009600-69014600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr14:69009600-69016000	Enhancers	Breast Myoepithelial Primary Cells	Breast
31	chr14:69009800-69013800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr14:69010000-69013600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr14:69010200-69013400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr14:69010400-69013600	Weak transcription	Rectal Mucosa Donor 31	rectum
35	chr14:69010400-69015200	Enhancers	NHLF	lung
36	chr14:69010400-69017000	Enhancers	Pancreas	Pancrea
37	chr14:69010400-69018600	Enhancers	Fetal Stomach	stomach
38	chr14:69010600-69014200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr14:69010800-69013800	Enhancers	Muscle Satellite Cultured Cells	--
40	chr14:69010800-69013800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr14:69010800-69017800	Enhancers	Stomach Mucosa	stomach
42	chr14:69011000-69013800	Enhancers	Hela-S3	cervix
43	chr14:69011200-69013800	Enhancers	Placenta	Placenta
44	chr14:69011200-69014000	Weak transcription	Fetal Brain Female	brain
45	chr14:69011400-69013600	Weak transcription	Adipose Nuclei	Adipose
46	chr14:69011400-69013800	Weak transcription	Duodenum Smooth Muscle	Duodenum
47	chr14:69011400-69014000	Weak transcription	Fetal Thymus	thymus
48	chr14:69011400-69018000	Weak transcription	Primary hematopoietic stem cells	blood
49	chr14:69011600-69013400	Weak transcription	Brain Germinal Matrix	brain
50	chr14:69011600-69013400	Weak transcription	Small Intestine	intestine

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