Variant report

Variant	rs10258184
Chromosome Location	chr7:102981069-102981070
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	STAT3	chr7:102981008-102981185	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:102956533..102959951-chr7:102978217..102982199,5	K562	blood:
2	chr7:102979652..102981200-chr7:103005438..103008322,2	K562	blood:

Variant related genes	Relation type
PSMC2	TF binding region
ENSG00000105821	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10046531	1.00[ASW][hapmap];0.87[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10234196	1.00[ASW][hapmap];0.87[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10235693	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10243055	1.00[ASW][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10247278	1.00[MKK][hapmap];1.00[YRI][hapmap]
rs10252006	1.00[AMR][1000 genomes]
rs10255884	1.00[AMR][1000 genomes]
rs10259126	1.00[AMR][1000 genomes]
rs10271644	1.00[AMR][1000 genomes]
rs10273102	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10279752	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10279918	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10441305	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2079253	0.90[AFR][1000 genomes]
rs28399298	1.00[AMR][1000 genomes]
rs28602812	1.00[ASW][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]
rs28605237	1.00[AMR][1000 genomes]
rs4480048	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4612274	1.00[ASW][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56703102	1.00[AMR][1000 genomes]
rs58192762	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7794374	1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv868996	chr7:102332827-102991361	ZNF genes & repeats Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
2	nsv1030446	chr7:102932689-103221638	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv491911	chr7:102967150-103403622	Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 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	chr7:102938600-102984200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr7:102939800-102984000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr7:102939800-102984200	Weak transcription	Stomach Mucosa	stomach
4	chr7:102940000-102983000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr7:102948800-102982600	Strong transcription	Primary monocytes fromperipheralblood	blood
6	chr7:102952000-102983800	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr7:102954600-102984000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr7:102959600-102981200	Weak transcription	Pancreas	Pancrea
9	chr7:102960400-102984200	Weak transcription	Spleen	Spleen
10	chr7:102962400-102981400	Weak transcription	Gastric	stomach
11	chr7:102962400-102984200	Weak transcription	Aorta	Aorta
12	chr7:102970800-102981600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr7:102970800-102982800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr7:102971200-102983000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr7:102971400-102981200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr7:102971400-102982400	Strong transcription	Primary B cells from peripheral blood	blood
17	chr7:102971400-102982800	Strong transcription	HUES64 Cell Line	embryonic stem cell
18	chr7:102971400-102983000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr7:102971600-102982400	Strong transcription	Primary T cells fromperipheralblood	blood
20	chr7:102971600-102982600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr7:102971800-102982400	Strong transcription	Placenta	Placenta
22	chr7:102971800-102982600	Strong transcription	Monocytes-CD14+_RO01746	blood
23	chr7:102972600-102982800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr7:102972800-102982400	Strong transcription	Rectal Mucosa Donor 29	rectum
25	chr7:102973000-102981400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr7:102973000-102982200	Strong transcription	Fetal Muscle Trunk	muscle
27	chr7:102973000-102982400	Strong transcription	Fetal Muscle Leg	muscle
28	chr7:102973000-102982600	Strong transcription	Fetal Intestine Large	intestine
29	chr7:102973000-102983000	Strong transcription	HUES6 Cell Line	embryonic stem cell
30	chr7:102973200-102981400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr7:102973200-102981600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
32	chr7:102973200-102982200	Strong transcription	Cortex derived primary cultured neurospheres	brain
33	chr7:102973200-102982400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr7:102973200-102982400	Strong transcription	Fetal Thymus	thymus
35	chr7:102973200-102982600	Strong transcription	Primary T cells from cord blood	blood
36	chr7:102973400-102981400	Strong transcription	Adipose Nuclei	Adipose
37	chr7:102973400-102981600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr7:102973400-102981800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
39	chr7:102973400-102982200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr7:102973400-102982400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
41	chr7:102973400-102982600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr7:102973400-102982800	Strong transcription	HUES48 Cell Line	embryonic stem cell
43	chr7:102973600-102981200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr7:102973600-102981200	Strong transcription	Osteobl	bone
45	chr7:102973800-102981600	Strong transcription	Fetal Stomach	stomach
46	chr7:102973800-102982400	Strong transcription	A549	lung
47	chr7:102974000-102982600	Strong transcription	H1 Cell Line	embryonic stem cell
48	chr7:102974000-102982600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
49	chr7:102974600-102982400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr7:102974600-102982600	Strong transcription	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links