Variant report

Variant	rs10278708
Chromosome Location	chr7:7720348-7720349
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:7719627..7722096-chr7:8004642..8007515,2	MCF-7	breast:

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs1012996	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs10227168	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10227236	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs10229371	0.86[AFR][1000 genomes]
rs10240471	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10246966	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10257718	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10262410	0.91[AFR][1000 genomes]
rs10277292	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13221027	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs13231388	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs13234728	0.92[AFR][1000 genomes]
rs13242539	0.86[ASN][1000 genomes]
rs1557997	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs1557998	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs2107999	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs2108000	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs2108003	0.90[AFR][1000 genomes]
rs28912673	0.83[ASN][1000 genomes]
rs35375940	0.86[ASN][1000 genomes]
rs4140804	0.82[AFR][1000 genomes]
rs4140805	0.89[AFR][1000 genomes]
rs4313075	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62432601	0.86[ASN][1000 genomes]
rs6944960	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6947203	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6966464	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs717841	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7781054	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7800719	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7804775	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9648616	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1026758	chr7:7187491-8075259	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS 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	84 gene(s)	inside rSNPs	diseases
2	nsv606042	chr7:7427535-7876466	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
3	nsv887477	chr7:7531819-7810122	Weak transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
4	nsv1032670	chr7:7535515-8017077	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
5	nsv8043	chr7:7589195-7862802	Flanking Active TSS Weak transcription Enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
6	nsv606044	chr7:7652372-7727101	Active TSS Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
7	nsv887478	chr7:7670718-7917360	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
8	nsv887479	chr7:7681131-7779091	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
9	nsv887480	chr7:7681131-7917360	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
10	nsv887481	chr7:7681576-7779324	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
11	nsv887482	chr7:7682439-7785047	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
12	nsv887483	chr7:7682439-7798217	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
13	nsv887484	chr7:7692483-7769363	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
14	nsv887485	chr7:7692483-7917360	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
15	nsv606045	chr7:7704889-7755491	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
16	nsv887486	chr7:7712498-7785047	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:7703400-7726800	Weak transcription	Brain Germinal Matrix	brain
2	chr7:7704400-7720800	Weak transcription	Stomach Mucosa	stomach
3	chr7:7704400-7721000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr7:7704400-7726400	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr7:7706800-7743200	Weak transcription	Gastric	stomach
6	chr7:7708600-7738600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr7:7708800-7720800	Weak transcription	Rectal Smooth Muscle	rectum
8	chr7:7709200-7720800	Weak transcription	Psoas Muscle	Psoas
9	chr7:7711600-7720800	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr7:7711600-7726400	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr7:7711800-7721000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr7:7712400-7720800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr7:7712400-7720800	Weak transcription	Dnd41	blood
14	chr7:7712600-7720800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
15	chr7:7713600-7720800	Weak transcription	Brain Hippocampus Middle	brain
16	chr7:7713800-7720800	Weak transcription	Brain Angular Gyrus	brain
17	chr7:7714000-7720800	Weak transcription	Brain Cingulate Gyrus	brain
18	chr7:7714000-7721600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr7:7714200-7720800	Weak transcription	Skeletal Muscle Male	skeletal muscle
20	chr7:7714400-7720800	Weak transcription	Stomach Smooth Muscle	stomach
21	chr7:7714400-7720800	Weak transcription	Hela-S3	cervix
22	chr7:7714400-7722600	Weak transcription	Thymus	Thymus
23	chr7:7715200-7720800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr7:7715400-7720600	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr7:7715800-7720800	Weak transcription	Brain Anterior Caudate	brain
26	chr7:7715800-7720800	Weak transcription	Fetal Intestine Large	intestine
27	chr7:7715800-7720800	Weak transcription	Skeletal Muscle Female	skeletal muscle
28	chr7:7715800-7722600	Weak transcription	Fetal Muscle Leg	muscle
29	chr7:7715800-7722600	Weak transcription	Pancreas	Pancrea
30	chr7:7715800-7726400	Weak transcription	Aorta	Aorta
31	chr7:7715800-7728800	Weak transcription	Right Ventricle	heart
32	chr7:7715800-7736400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
33	chr7:7716000-7720400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr7:7716000-7720600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr7:7716000-7720800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr7:7716000-7721000	Weak transcription	Primary neutrophils fromperipheralblood	blood
37	chr7:7716000-7721000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
38	chr7:7716000-7721000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
39	chr7:7716000-7721000	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr7:7716000-7721000	Weak transcription	Fetal Lung	lung
41	chr7:7716000-7724000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr7:7716000-7726400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr7:7716000-7727000	Weak transcription	Left Ventricle	heart
44	chr7:7716000-7733400	Weak transcription	Esophagus	oesophagus
45	chr7:7716000-7735200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr7:7716000-7738400	Weak transcription	Sigmoid Colon	Sigmoid Colon
47	chr7:7716200-7721400	Weak transcription	Primary T cells from cord blood	blood
48	chr7:7716200-7721600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
49	chr7:7716400-7721000	Weak transcription	A549	lung
50	chr7:7717000-7721000	Weak transcription	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links