Variant report

Variant	rs17777642
Chromosome Location	chr7:104599208-104599209
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:104593671..104595578-chr7:104597334..104600317,2	K562	blood:
2	chr7:104598820..104600629-chr7:104619453..104622202,2	K562	blood:
3	chr7:104593017..104595586-chr7:104599045..104600667,2	MCF-7	breast:
4	chr7:104598070..104600552-chr7:104603554..104605680,2	MCF-7	breast:
5	chr7:104584116..104586907-chr7:104596307..104599294,2	K562	blood:
6	chr7:104597662..104599339-chr7:104600006..104602657,2	K562	blood:
7	chr7:104595365..104601201-chr7:104602410..104607281,8	K562	blood:

Extended variants
information (count: 17 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs13237211	0.86[ASN][1000 genomes]
rs2252074	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2428161	0.85[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs2428162	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2470951	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6466030	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6466031	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6466033	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6466034	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6955349	0.80[EUR][1000 genomes]
rs6965384	0.82[CEU][hapmap]
rs740068	0.91[CHB][hapmap];0.90[JPT][hapmap]
rs7776707	0.81[CEU][hapmap]
rs7795893	0.91[CHB][hapmap];0.91[JPT][hapmap]
rs7807853	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs886145	0.86[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][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	nsv1029283	chr7:104571741-104729168	Strong transcription Flanking Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	132 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:104584600-104619000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr7:104587200-104600800	Weak transcription	Primary neutrophils fromperipheralblood	blood
3	chr7:104587200-104623600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr7:104591600-104604600	Weak transcription	Fetal Kidney	kidney
5	chr7:104595600-104599400	Enhancers	Primary hematopoietic stem cells short term culture	blood
6	chr7:104595600-104599400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr7:104595600-104599400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr7:104595600-104599400	Enhancers	Stomach Mucosa	stomach
9	chr7:104595600-104599400	Enhancers	NHDF-Ad	bronchial
10	chr7:104595600-104605600	Enhancers	Primary monocytes fromperipheralblood	blood
11	chr7:104595800-104599400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr7:104595800-104599400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr7:104595800-104601200	Enhancers	Monocytes-CD14+_RO01746	blood
14	chr7:104596200-104599400	Enhancers	Primary hematopoietic stem cells	blood
15	chr7:104596200-104599400	Enhancers	Colon Smooth Muscle	Colon
16	chr7:104596200-104601200	Weak transcription	Adipose Nuclei	Adipose
17	chr7:104596400-104599400	Enhancers	NHLF	lung
18	chr7:104596400-104599600	Enhancers	Fetal Intestine Small	intestine
19	chr7:104596600-104599400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr7:104596800-104599400	Enhancers	Muscle Satellite Cultured Cells	--
21	chr7:104596800-104599400	Enhancers	Stomach Smooth Muscle	stomach
22	chr7:104596800-104599400	Enhancers	Osteobl	bone
23	chr7:104597000-104599400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr7:104597000-104599400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr7:104597000-104599600	Enhancers	Fetal Stomach	stomach
26	chr7:104597200-104599400	Enhancers	Rectal Mucosa Donor 31	rectum
27	chr7:104597200-104608200	Weak transcription	Primary T helper cells fromperipheralblood	blood
28	chr7:104597800-104599400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr7:104597800-104601000	Weak transcription	Thymus	Thymus
30	chr7:104597800-104601200	Weak transcription	Skeletal Muscle Male	skeletal muscle
31	chr7:104597800-104606200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr7:104598000-104599400	Enhancers	Colonic Mucosa	Colon
33	chr7:104598000-104599400	Enhancers	Fetal Intestine Large	intestine
34	chr7:104598000-104601000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr7:104598000-104601200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr7:104598000-104601200	Weak transcription	NHEK	skin
37	chr7:104598000-104601600	Weak transcription	Right Atrium	heart
38	chr7:104598000-104602800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
39	chr7:104598000-104603000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr7:104598000-104603400	Weak transcription	Skeletal Muscle Female	skeletal muscle
41	chr7:104598000-104619800	Weak transcription	Primary T cells from cord blood	blood
42	chr7:104598000-104621600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
43	chr7:104598200-104600600	Weak transcription	Primary B cells from cord blood	blood
44	chr7:104598200-104601000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr7:104598200-104601200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr7:104598200-104601200	Weak transcription	Sigmoid Colon	Sigmoid Colon
47	chr7:104598200-104601200	Weak transcription	Small Intestine	intestine
48	chr7:104598200-104601200	Weak transcription	HMEC	breast
49	chr7:104598200-104611600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
50	chr7:104598200-104620800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links