Variant report

Variant	rs73189577
Chromosome Location	chr7:107234351-107234352
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:107219336..107222149-chr7:107234347..107238081,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000075790	Chromatin interaction
ENSG00000272854	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs17154063	0.86[EUR][1000 genomes]
rs59491009	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs59542667	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs59650342	0.91[EUR][1000 genomes]
rs59650878	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs66577901	0.95[EUR][1000 genomes]
rs67754921	0.95[EUR][1000 genomes]
rs67869824	0.82[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs67921365	0.93[EUR][1000 genomes]
rs6945787	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6957510	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73187359	0.86[EUR][1000 genomes]
rs73187360	0.86[EUR][1000 genomes]
rs73187362	0.86[EUR][1000 genomes]
rs73187364	0.86[EUR][1000 genomes]
rs73187367	0.91[EUR][1000 genomes]
rs73187370	0.91[EUR][1000 genomes]
rs73189572	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73189576	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73189582	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs73189583	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs73189586	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs73189592	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs73189594	0.81[EUR][1000 genomes]
rs73189601	0.81[EUR][1000 genomes]
rs73189602	0.81[EUR][1000 genomes]
rs73191603	0.81[EUR][1000 genomes]
rs73191605	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs73191606	0.81[EUR][1000 genomes]
rs73191607	0.81[EUR][1000 genomes]
rs73191610	0.81[EUR][1000 genomes]
rs73419448	0.88[EUR][1000 genomes]
rs7777628	0.93[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs7786360	0.91[EUR][1000 genomes]
rs7789746	0.81[EUR][1000 genomes]
rs7790876	0.81[EUR][1000 genomes]
rs7791196	0.81[EUR][1000 genomes]
rs7802519	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1033979	chr7:107003734-107877761	Strong transcription Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
2	nsv1028571	chr7:107114479-107299723	Strong transcription Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv539053	chr7:107114479-107299723	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	nsv482365	chr7:107122401-107271861	Enhancers Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
5	nsv608074	chr7:107179131-107260856	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:107221200-107237400	Weak transcription	Esophagus	oesophagus
2	chr7:107221200-107272000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr7:107221400-107235200	Weak transcription	Primary T cells fromperipheralblood	blood
4	chr7:107221400-107235400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr7:107221400-107237400	Weak transcription	Pancreas	Pancrea
6	chr7:107221400-107253800	Weak transcription	Ovary	ovary
7	chr7:107221400-107254200	Weak transcription	Thymus	Thymus
8	chr7:107221400-107256400	Weak transcription	Lung	lung
9	chr7:107221400-107272400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr7:107221400-107276000	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr7:107221600-107254200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr7:107221800-107237200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr7:107221800-107243200	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr7:107221800-107243400	Weak transcription	HUES6 Cell Line	embryonic stem cell
15	chr7:107221800-107249400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr7:107222000-107235000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr7:107222000-107235200	Weak transcription	Primary hematopoietic stem cells	blood
18	chr7:107222000-107235400	Weak transcription	HSMMtube	muscle
19	chr7:107222000-107242000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
20	chr7:107222400-107234600	Weak transcription	Stomach Smooth Muscle	stomach
21	chr7:107222400-107235400	Weak transcription	Fetal Kidney	kidney
22	chr7:107222400-107241600	Weak transcription	Colonic Mucosa	Colon
23	chr7:107222400-107242200	Weak transcription	HepG2	liver
24	chr7:107222400-107258200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
25	chr7:107222600-107237600	Weak transcription	Psoas Muscle	Psoas
26	chr7:107223000-107234800	Weak transcription	Primary T cells from cord blood	blood
27	chr7:107223000-107254400	Weak transcription	Brain Germinal Matrix	brain
28	chr7:107223200-107235000	Weak transcription	Small Intestine	intestine
29	chr7:107223200-107240400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
30	chr7:107223400-107234600	Weak transcription	Primary T helper cells fromperipheralblood	blood
31	chr7:107223400-107256800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
32	chr7:107223600-107235400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
33	chr7:107223600-107235400	Weak transcription	Brain Cingulate Gyrus	brain
34	chr7:107223600-107235400	Weak transcription	Right Atrium	heart
35	chr7:107223600-107235600	Weak transcription	Brain Substantia Nigra	brain
36	chr7:107223600-107254400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr7:107223600-107256600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
38	chr7:107223800-107235400	Weak transcription	Primary T helper cells PMA-I stimulated	--
39	chr7:107225200-107235200	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr7:107225400-107235400	Weak transcription	Fetal Brain Female	brain
41	chr7:107225600-107254000	Weak transcription	Brain Hippocampus Middle	brain
42	chr7:107226000-107234400	Weak transcription	Cortex derived primary cultured neurospheres	brain
43	chr7:107226000-107234600	Weak transcription	HUES64 Cell Line	embryonic stem cell
44	chr7:107226000-107235200	Weak transcription	Hela-S3	cervix
45	chr7:107226200-107235400	Weak transcription	Skeletal Muscle Male	skeletal muscle
46	chr7:107226200-107235400	Weak transcription	GM12878-XiMat	blood
47	chr7:107226200-107254000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
48	chr7:107226400-107234400	Weak transcription	Duodenum Smooth Muscle	Duodenum
49	chr7:107226800-107235200	Weak transcription	Primary B cells from peripheral blood	blood
50	chr7:107226800-107254200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links