Variant report

Variant	rs699629
Chromosome Location	chr12:64521141-64521142
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:64519614..64522178-chr12:64614567..64616218,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000243024	Chromatin interaction
ENSG00000174206	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10459258	1.00[AMR][1000 genomes]
rs10459259	1.00[AMR][1000 genomes]
rs10735920	1.00[AMR][1000 genomes]
rs10735921	1.00[AMR][1000 genomes]
rs10735922	1.00[AMR][1000 genomes]
rs10878133	1.00[AMR][1000 genomes]
rs10878145	1.00[AMR][1000 genomes]
rs11175219	1.00[ASW][hapmap]
rs1162970	1.00[AMR][1000 genomes]
rs11835078	1.00[AMR][1000 genomes]
rs1436361	1.00[AMR][1000 genomes]
rs1469862	1.00[AMR][1000 genomes]
rs1657051	1.00[AMR][1000 genomes]
rs1708200	1.00[AMR][1000 genomes]
rs17099949	1.00[ASW][hapmap]
rs17711166	1.00[ASW][hapmap]
rs1865796	1.00[AMR][1000 genomes]
rs1898221	1.00[AMR][1000 genomes]
rs2082951	1.00[AMR][1000 genomes]
rs2335390	1.00[AMR][1000 genomes]
rs2453509	1.00[AMR][1000 genomes]
rs2575290	1.00[AMR][1000 genomes]
rs2575294	1.00[AMR][1000 genomes]
rs35744300	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4237925	1.00[AMR][1000 genomes]
rs4522269	1.00[AMR][1000 genomes]
rs4572232	1.00[AMR][1000 genomes]
rs4763153	1.00[AMR][1000 genomes]
rs4763156	1.00[AMR][1000 genomes]
rs6421211	1.00[AMR][1000 genomes]
rs6581542	1.00[AMR][1000 genomes]
rs696658	1.00[AMR][1000 genomes]
rs696659	1.00[AMR][1000 genomes]
rs699630	1.00[AMR][1000 genomes]
rs699631	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs699632	1.00[AMR][1000 genomes]
rs699635	1.00[AMR][1000 genomes]
rs699636	1.00[AMR][1000 genomes]
rs699637	1.00[AMR][1000 genomes]
rs699638	1.00[AMR][1000 genomes]
rs7488560	1.00[AMR][1000 genomes]
rs789723	1.00[AMR][1000 genomes]
rs789725	1.00[YRI][hapmap]
rs789726	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs789727	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs789728	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs789730	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs789738	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs789742	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs789747	1.00[AMR][1000 genomes]
rs790013	1.00[AMR][1000 genomes]
rs790014	1.00[AMR][1000 genomes]
rs790017	1.00[AMR][1000 genomes]
rs7955105	1.00[AMR][1000 genomes]
rs7976524	1.00[AMR][1000 genomes]
rs809322	1.00[AMR][1000 genomes]
rs813156	1.00[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3351487	chr12:64420364-64763950	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:85 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:64474800-64521400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr12:64483000-64521400	Weak transcription	Liver	Liver
3	chr12:64483200-64521400	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr12:64483600-64521400	Weak transcription	Lung	lung
5	chr12:64487400-64526600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr12:64491800-64523600	Weak transcription	HUVEC	blood vessel
7	chr12:64493200-64523600	Weak transcription	Brain Angular Gyrus	brain
8	chr12:64494000-64521400	Weak transcription	Psoas Muscle	Psoas
9	chr12:64494200-64521400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr12:64498400-64538400	Weak transcription	Small Intestine	intestine
11	chr12:64498600-64521400	Weak transcription	NH-A	brain
12	chr12:64499000-64521400	Weak transcription	Rectal Smooth Muscle	rectum
13	chr12:64503200-64521400	Weak transcription	Brain Substantia Nigra	brain
14	chr12:64506200-64521200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr12:64506400-64521400	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr12:64506600-64527000	Weak transcription	Colon Smooth Muscle	Colon
17	chr12:64506800-64521400	Weak transcription	Duodenum Mucosa	Duodenum
18	chr12:64506800-64521400	Weak transcription	Fetal Kidney	kidney
19	chr12:64506800-64521400	Weak transcription	Fetal Lung	lung
20	chr12:64506800-64527200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr12:64510600-64521400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr12:64510600-64527200	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr12:64511000-64521200	Weak transcription	Cortex derived primary cultured neurospheres	brain
24	chr12:64511000-64521200	Weak transcription	Brain Germinal Matrix	brain
25	chr12:64511000-64521400	Weak transcription	Fetal Intestine Small	intestine
26	chr12:64511000-64521400	Weak transcription	Fetal Stomach	stomach
27	chr12:64511000-64521400	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr12:64511000-64523400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr12:64511000-64530200	Weak transcription	Right Atrium	heart
30	chr12:64511200-64539400	Weak transcription	HepG2	liver
31	chr12:64513000-64521400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr12:64514600-64522400	Weak transcription	Skeletal Muscle Female	skeletal muscle
33	chr12:64514800-64535800	Weak transcription	Hela-S3	cervix
34	chr12:64516200-64521400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
35	chr12:64517000-64521400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr12:64517000-64521800	Strong transcription	NHEK	skin
37	chr12:64518000-64527200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
38	chr12:64518400-64525400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr12:64518800-64523200	Strong transcription	NHLF	lung
40	chr12:64519000-64522800	Strong transcription	HSMM	muscle
41	chr12:64519200-64523800	Weak transcription	Placenta	Placenta
42	chr12:64519200-64527200	Strong transcription	A549	lung
43	chr12:64519400-64521200	Weak transcription	Colonic Mucosa	Colon
44	chr12:64519400-64523000	Strong transcription	Osteobl	bone
45	chr12:64519600-64521400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr12:64519600-64524400	Strong transcription	HSMMtube	muscle
47	chr12:64519600-64525600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr12:64519600-64525800	Strong transcription	Muscle Satellite Cultured Cells	--
49	chr12:64519600-64526600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
50	chr12:64519800-64522600	Strong transcription	HMEC	breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links