Variant report

Variant	rs7422106
Chromosome Location	chr2:189934101-189934102
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	chr2:189929339..189931354-chr2:189932552..189935028,3	MCF-7	breast:

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10165260	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10176287	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10194618	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3923384	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4128538	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4666770	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6434322	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6717231	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6750027	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7420715	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7422861	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7423494	0.86[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs7424947	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7558610	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7592230	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7592439	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 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	nsv3074	chr2:189931263-189976124	Genic enhancers Strong transcription ZNF genes & repeats Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:189895200-189940800	Strong transcription	HSMM	muscle
2	chr2:189895600-189965200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr2:189896200-189962400	Weak transcription	Left Ventricle	heart
4	chr2:189897000-189949000	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr2:189897200-189934400	Weak transcription	Gastric	stomach
6	chr2:189898400-189938200	Weak transcription	HMEC	breast
7	chr2:189899000-189939200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr2:189900800-189964400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr2:189901200-189947400	Weak transcription	Fetal Brain Male	brain
10	chr2:189902600-189937000	Strong transcription	NH-A	brain
11	chr2:189904000-189938200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr2:189904400-189934400	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr2:189904400-189951000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr2:189909200-189936200	Weak transcription	Small Intestine	intestine
15	chr2:189909800-189934200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr2:189912400-189961600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr2:189914400-189937000	Strong transcription	Adipose Nuclei	Adipose
18	chr2:189914800-189946800	Weak transcription	Rectal Smooth Muscle	rectum
19	chr2:189915000-189950600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr2:189915400-189938200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr2:189915400-189951000	Strong transcription	Osteobl	bone
22	chr2:189916200-189947600	Weak transcription	Spleen	Spleen
23	chr2:189917800-189934400	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr2:189921800-189935400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr2:189922000-189938000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr2:189922800-189980800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr2:189925600-189940600	Weak transcription	Skeletal Muscle Female	skeletal muscle
28	chr2:189927000-189934800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
29	chr2:189928200-189940800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr2:189929400-189941000	Weak transcription	Duodenum Mucosa	Duodenum
31	chr2:189929600-189951400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr2:189929800-189935400	Weak transcription	Placenta	Placenta
33	chr2:189931200-189935200	Weak transcription	Liver	Liver
34	chr2:189931200-189941200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
35	chr2:189931400-189937000	Strong transcription	NHDF-Ad	bronchial
36	chr2:189931400-189940600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr2:189931600-189934200	Strong transcription	A549	lung
38	chr2:189931600-189935600	Weak transcription	Stomach Smooth Muscle	stomach
39	chr2:189932400-189937000	Strong transcription	Muscle Satellite Cultured Cells	--
40	chr2:189932600-189935000	Strong transcription	Fetal Lung	lung
41	chr2:189932600-189936600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr2:189932600-189937000	Strong transcription	Fetal Muscle Trunk	muscle
43	chr2:189933000-189934600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr2:189933000-189935400	Weak transcription	Sigmoid Colon	Sigmoid Colon
45	chr2:189933000-189938600	Weak transcription	HUES6 Cell Line	embryonic stem cell
46	chr2:189933000-189940600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr2:189933000-189941000	Weak transcription	Ovary	ovary
48	chr2:189933000-189960400	Weak transcription	Placenta Amnion	Placenta Amnion
49	chr2:189933000-189980200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
50	chr2:189933200-189946800	Weak transcription	Fetal Kidney	kidney

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links