Variant report

Variant	rs60979871
Chromosome Location	chr12:121678764-121678765
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:121670055..121672601-chr12:121677371..121679007,2	K562	blood:
2	chr12:121666865..121669227-chr12:121676180..121679076,2	MCF-7	breast:
3	chr12:121676787..121679151-chr12:121688485..121690169,2	MCF-7	breast:

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs1653586	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1653587	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1653588	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1653589	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1653590	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1653592	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1653593	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1718118	0.86[EUR][1000 genomes]
rs1718156	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1718158	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2071272	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2071273	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2252298	1.00[EUR][1000 genomes]
rs2252304	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2272076	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2288691	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2288693	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs25642	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2567982	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2668239	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2668246	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2686339	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2686372	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28969487	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3751145	1.00[AFR][1000 genomes]
rs3815990	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57379013	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57419819	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs57983015	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs59037892	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs60714133	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv521928	chr12:121041728-121761800	Genic enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
2	nsv560454	chr12:121457073-121745742	Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv1054878	chr12:121519880-121761800	Flanking Active TSS Genic enhancers Strong transcription Weak transcription Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
4	nsv455729	chr12:121525591-121761800	Enhancers Strong transcription Genic enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
5	nsv560455	chr12:121525591-121761800	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
6	nsv1050519	chr12:121552964-121756420	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
7	nsv899564	chr12:121641509-121689798	Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
8	nsv899565	chr12:121641509-121698785	Weak transcription Genic enhancers Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
9	nsv455731	chr12:121668254-121687174	Weak transcription Bivalent Enhancer Genic enhancers Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
10	nsv560456	chr12:121668254-121687174	Genic enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	Chromatin interactive region	4 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	chr12:121649400-121680200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr12:121653200-121698800	Weak transcription	Fetal Heart	heart
3	chr12:121662000-121679000	Weak transcription	K562	blood
4	chr12:121662800-121690600	Weak transcription	Fetal Brain Male	brain
5	chr12:121665600-121681400	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr12:121666600-121679200	Strong transcription	Lung	lung
7	chr12:121667800-121685200	Weak transcription	Hela-S3	cervix
8	chr12:121670200-121689400	Strong transcription	Fetal Brain Female	brain
9	chr12:121670600-121695000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr12:121671200-121686200	Weak transcription	Small Intestine	intestine
11	chr12:121671800-121681200	Weak transcription	Brain Angular Gyrus	brain
12	chr12:121672200-121678800	Weak transcription	HSMM	muscle
13	chr12:121672800-121679200	Weak transcription	Ovary	ovary
14	chr12:121673200-121679800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr12:121673600-121679600	Strong transcription	Dnd41	blood
16	chr12:121673600-121681200	Weak transcription	HMEC	breast
17	chr12:121674400-121687800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr12:121674600-121692800	Strong transcription	Cortex derived primary cultured neurospheres	brain
19	chr12:121674600-121704200	Strong transcription	Brain Germinal Matrix	brain
20	chr12:121675400-121679600	Strong transcription	NHEK	skin
21	chr12:121675600-121679600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr12:121675800-121679400	Genic enhancers	Primary neutrophils fromperipheralblood	blood
23	chr12:121676000-121679000	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr12:121676200-121679400	Weak transcription	Right Ventricle	heart
25	chr12:121676400-121679400	Enhancers	Primary monocytes fromperipheralblood	blood
26	chr12:121676400-121679400	Enhancers	Primary B cells from cord blood	blood
27	chr12:121676400-121680400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
28	chr12:121676600-121679000	Weak transcription	Gastric	stomach
29	chr12:121676800-121678800	Enhancers	Primary T killer memory cells from peripheral blood	blood
30	chr12:121676800-121679000	Flanking Active TSS	Stomach Smooth Muscle	stomach
31	chr12:121676800-121681200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
32	chr12:121676800-121684800	Weak transcription	Stomach Mucosa	stomach
33	chr12:121677000-121679400	Flanking Active TSS	Primary T cells from cord blood	blood
34	chr12:121677000-121679400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
35	chr12:121677200-121681200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr12:121677200-121681200	Weak transcription	Pancreas	Pancrea
37	chr12:121677400-121679000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr12:121677400-121679800	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
39	chr12:121677400-121681000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
40	chr12:121677400-121681200	Weak transcription	H9 Cell Line	embryonic stem cell
41	chr12:121677400-121681200	Weak transcription	HUES48 Cell Line	embryonic stem cell
42	chr12:121677400-121681200	Weak transcription	HUES64 Cell Line	embryonic stem cell
43	chr12:121677400-121686800	Weak transcription	HUVEC	blood vessel
44	chr12:121677400-121688000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
45	chr12:121677400-121695600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
46	chr12:121677400-121717000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
47	chr12:121677400-121717200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
48	chr12:121677600-121679000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr12:121677600-121688400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr12:121677800-121679200	Flanking Active TSS	Primary T cells fromperipheralblood	blood

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