Variant report

Variant	rs10247580
Chromosome Location	chr7:99258524-99258525
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	chr7:99154663..99157648-chr7:99258389..99261755,3	K562	blood:
2	chr7:99256740..99260670-chr7:99260944..99264080,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000106258	Chromatin interaction
ENSG00000197343	Chromatin interaction
ENSG00000272647	Chromatin interaction
ENSG00000221909	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10252115	1.00[ASW][hapmap];1.00[MEX][hapmap];0.86[YRI][hapmap]
rs10266141	1.00[MEX][hapmap]
rs13437714	1.00[MEX][hapmap]
rs2030537	1.00[MEX][hapmap]
rs28532224	1.00[ASW][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.86[YRI][hapmap]
rs28683039	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7790401	0.90[AFR][1000 genomes];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	nsv482532	chr7:99205906-99363886	Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers 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 miRNA target site	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:99228400-99258800	Weak transcription	Ovary	ovary
2	chr7:99229200-99267400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
3	chr7:99229200-99275000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr7:99229800-99260200	Weak transcription	Left Ventricle	heart
5	chr7:99229800-99272600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
6	chr7:99230400-99272000	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr7:99231800-99260200	Weak transcription	K562	blood
8	chr7:99231800-99264600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr7:99231800-99268000	Weak transcription	Brain Anterior Caudate	brain
10	chr7:99231800-99268600	Weak transcription	HepG2	liver
11	chr7:99232000-99258600	Weak transcription	Primary B cells from cord blood	blood
12	chr7:99232000-99275000	Weak transcription	A549	lung
13	chr7:99233000-99266000	Weak transcription	NHEK	skin
14	chr7:99235800-99276400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr7:99236800-99260400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr7:99236800-99263000	Weak transcription	Placenta	Placenta
17	chr7:99237000-99272200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr7:99237200-99258800	Weak transcription	Primary B cells from peripheral blood	blood
19	chr7:99237200-99264800	Weak transcription	Right Ventricle	heart
20	chr7:99241000-99268800	Weak transcription	Primary T cells fromperipheralblood	blood
21	chr7:99241600-99264600	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr7:99242200-99258800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr7:99242200-99261400	Weak transcription	HSMMtube	muscle
24	chr7:99242400-99272400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
25	chr7:99242800-99261000	Weak transcription	Aorta	Aorta
26	chr7:99242800-99267600	Weak transcription	GM12878-XiMat	blood
27	chr7:99243000-99278800	Weak transcription	Brain Angular Gyrus	brain
28	chr7:99243200-99267600	Weak transcription	Brain Cingulate Gyrus	brain
29	chr7:99243600-99276800	Weak transcription	Stomach Smooth Muscle	stomach
30	chr7:99247800-99266800	Weak transcription	Primary T helper cells fromperipheralblood	blood
31	chr7:99251600-99264000	Weak transcription	Psoas Muscle	Psoas
32	chr7:99251600-99276400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr7:99254400-99275400	Weak transcription	Fetal Stomach	stomach
34	chr7:99255800-99277000	Weak transcription	Fetal Brain Male	brain
35	chr7:99256200-99263400	Weak transcription	HSMM	muscle
36	chr7:99256400-99258600	ZNF genes & repeats	Fetal Intestine Small	intestine
37	chr7:99256600-99259200	ZNF genes & repeats	Liver	Liver
38	chr7:99256600-99270200	Strong transcription	Duodenum Mucosa	Duodenum
39	chr7:99257000-99258600	ZNF genes & repeats	Sigmoid Colon	Sigmoid Colon
40	chr7:99257000-99259200	ZNF genes & repeats	Fetal Intestine Large	intestine
41	chr7:99257200-99261200	Strong transcription	Gastric	stomach
42	chr7:99257200-99274600	Strong transcription	Rectal Mucosa Donor 29	rectum
43	chr7:99257400-99259200	ZNF genes & repeats	Fetal Lung	lung
44	chr7:99257400-99274600	Strong transcription	Rectal Mucosa Donor 31	rectum
45	chr7:99257600-99258600	ZNF genes & repeats	Esophagus	oesophagus
46	chr7:99257600-99259200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr7:99257600-99259200	Strong transcription	Colonic Mucosa	Colon
48	chr7:99257600-99260600	Strong transcription	Adipose Nuclei	Adipose
49	chr7:99257600-99260600	Strong transcription	Rectal Smooth Muscle	rectum
50	chr7:99257600-99262000	Strong transcription	Pancreas	Pancrea

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links