Variant report

Variant	rs10165458
Chromosome Location	chr2:190311683-190311684
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:190310567..190312254-chr2:190312605..190315190,2	MCF-7	breast:
2	chr2:190310939..190313402-chr2:190419193..190420763,2	MCF-7	breast:
3	chr2:190311604..190313492-chr2:190323415..190325116,2	K562	blood:

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10169961	1.00[AMR][1000 genomes]
rs10174921	1.00[YRI][hapmap]
rs10176299	1.00[AMR][1000 genomes]
rs10180374	1.00[AMR][1000 genomes]
rs10200629	1.00[YRI][hapmap]
rs10202436	1.00[YRI][hapmap]
rs10202723	1.00[YRI][hapmap]
rs10205215	1.00[YRI][hapmap]
rs10207870	1.00[AMR][1000 genomes]
rs13395385	1.00[AMR][1000 genomes]
rs13398414	1.00[AMR][1000 genomes]
rs13398464	1.00[AMR][1000 genomes]
rs13401036	1.00[AMR][1000 genomes]
rs13403213	1.00[AMR][1000 genomes]
rs13407452	1.00[YRI][hapmap]
rs13411962	1.00[AMR][1000 genomes]
rs13419394	1.00[AMR][1000 genomes]
rs13424504	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs13429628	1.00[YRI][hapmap]
rs28475172	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6721230	1.00[YRI][hapmap]
rs6732228	1.00[AMR][1000 genomes]
rs6757248	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6760660	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73045800	1.00[AMR][1000 genomes]
rs73047715	1.00[AMR][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	nsv533029	chr2:189812229-190554339	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv875613	chr2:189999011-190324685	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
3	nsv875615	chr2:190215527-190444392	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
4	nsv584062	chr2:190272195-190376493	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:190306800-190323000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr2:190306800-190323800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr2:190306800-190344200	Weak transcription	Esophagus	oesophagus
4	chr2:190307000-190317600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr2:190307000-190334200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr2:190307200-190312800	Weak transcription	Primary neutrophils fromperipheralblood	blood
7	chr2:190307200-190313200	Weak transcription	Fetal Kidney	kidney
8	chr2:190307200-190313400	Weak transcription	Brain Cingulate Gyrus	brain
9	chr2:190307400-190311800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr2:190307400-190312200	Weak transcription	Placenta	Placenta
11	chr2:190307400-190312400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
12	chr2:190307400-190312800	Weak transcription	Primary monocytes fromperipheralblood	blood
13	chr2:190307400-190312800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr2:190307400-190313000	Weak transcription	HSMMtube	muscle
15	chr2:190307600-190312200	Weak transcription	Fetal Muscle Trunk	muscle
16	chr2:190307600-190312200	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr2:190307600-190312600	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr2:190307600-190312600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr2:190307600-190312800	Weak transcription	Brain Anterior Caudate	brain
20	chr2:190307600-190313000	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr2:190307600-190313200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr2:190307600-190314200	Weak transcription	Brain Germinal Matrix	brain
23	chr2:190307600-190314800	Weak transcription	Left Ventricle	heart
24	chr2:190307600-190314800	Weak transcription	Skeletal Muscle Male	skeletal muscle
25	chr2:190307600-190315000	Weak transcription	Gastric	stomach
26	chr2:190307600-190316200	Weak transcription	H9 Cell Line	embryonic stem cell
27	chr2:190307600-190316200	Weak transcription	Rectal Smooth Muscle	rectum
28	chr2:190307600-190316400	Weak transcription	Colonic Mucosa	Colon
29	chr2:190307600-190317000	Weak transcription	Fetal Stomach	stomach
30	chr2:190307600-190317200	Weak transcription	Placenta Amnion	Placenta Amnion
31	chr2:190307600-190317400	Weak transcription	Lung	lung
32	chr2:190307600-190322600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr2:190307600-190323400	Weak transcription	Ovary	ovary
34	chr2:190307600-190330000	Weak transcription	Fetal Heart	heart
35	chr2:190307600-190334200	Weak transcription	Pancreas	Pancrea
36	chr2:190307600-190338200	Weak transcription	Spleen	Spleen
37	chr2:190307600-190342000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr2:190307600-190342600	Weak transcription	Aorta	Aorta
39	chr2:190307800-190312000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
40	chr2:190307800-190313000	Weak transcription	Brain Substantia Nigra	brain
41	chr2:190307800-190314000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
42	chr2:190307800-190332400	Weak transcription	Stomach Mucosa	stomach
43	chr2:190308000-190311800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
44	chr2:190308000-190312800	Weak transcription	Fetal Thymus	thymus
45	chr2:190308000-190313000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr2:190308000-190313200	Weak transcription	Brain Hippocampus Middle	brain
47	chr2:190308000-190317000	Weak transcription	Fetal Intestine Small	intestine
48	chr2:190308000-190334600	Weak transcription	Right Ventricle	heart
49	chr2:190308200-190312800	Weak transcription	Fetal Lung	lung
50	chr2:190308200-190313000	Weak transcription	Fetal Brain Male	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links