Variant report

Variant	rs7635633
Chromosome Location	chr3:99556796-99556797
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:99554227..99558191-chr3:100053593..100055685,3	MCF-7	breast:
2	chr3:99550448..99553983-chr3:99555200..99558559,3	K562	blood:
3	chr3:99556792..99558674-chr3:100052428..100054968,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000114021	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10804762	0.82[EUR][1000 genomes]
rs12485299	1.00[CEU][hapmap]
rs12486901	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs12487173	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12489030	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs12490054	1.00[CHB][hapmap]
rs12491153	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs12493124	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs12493320	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1492343	1.00[CEU][hapmap]
rs1610263	0.82[CEU][hapmap]
rs1610265	0.89[CEU][hapmap]
rs1871847	1.00[CEU][hapmap]
rs2036984	0.80[CEU][hapmap]
rs3732444	0.89[EUR][1000 genomes]
rs3921767	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs4536867	0.82[CEU][hapmap]
rs4928220	1.00[CEU][hapmap]
rs4928222	1.00[CEU][hapmap]
rs55874130	1.00[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs55881709	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56140081	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs56223679	0.89[EUR][1000 genomes]
rs56335268	0.91[EUR][1000 genomes]
rs61010376	0.89[EUR][1000 genomes]
rs6789694	1.00[AFR][1000 genomes]
rs6792339	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs6800456	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs73150300	1.00[AFR][1000 genomes]
rs73858966	0.89[EUR][1000 genomes]
rs73859911	0.89[EUR][1000 genomes]
rs7632345	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs7635871	0.91[EUR][1000 genomes]
rs9821563	0.82[CEU][hapmap]
rs9858145	0.80[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817478	chr3:99474086-99955548	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv916476	chr3:99478229-100124625	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99537200-99562600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr3:99537200-99594400	Weak transcription	Esophagus	oesophagus
3	chr3:99537800-99561800	Weak transcription	Stomach Smooth Muscle	stomach
4	chr3:99537800-99562400	Weak transcription	Left Ventricle	heart
5	chr3:99538000-99556800	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr3:99538000-99563600	Weak transcription	Primary B cells from peripheral blood	blood
7	chr3:99538200-99584600	Weak transcription	Primary T cells from cord blood	blood
8	chr3:99543000-99557200	Weak transcription	Psoas Muscle	Psoas
9	chr3:99543000-99562600	Weak transcription	Placenta	Placenta
10	chr3:99544200-99561800	Weak transcription	NHLF	lung
11	chr3:99544200-99564800	Weak transcription	K562	blood
12	chr3:99544400-99557800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr3:99544400-99561800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr3:99544400-99561800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr3:99544800-99558000	Weak transcription	NHEK	skin
16	chr3:99545000-99557800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr3:99545000-99558000	Weak transcription	HMEC	breast
18	chr3:99545000-99562000	Weak transcription	HSMM	muscle
19	chr3:99549400-99556800	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr3:99551000-99561800	Weak transcription	HUES48 Cell Line	embryonic stem cell
21	chr3:99551200-99560200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
22	chr3:99551200-99566000	Weak transcription	Primary T helper cells PMA-I stimulated	--
23	chr3:99551600-99562600	Weak transcription	Fetal Muscle Trunk	muscle
24	chr3:99552400-99561600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr3:99552800-99557200	Weak transcription	Right Atrium	heart
26	chr3:99552800-99558200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
27	chr3:99552800-99561600	Weak transcription	Fetal Stomach	stomach
28	chr3:99552800-99561600	Weak transcription	Osteobl	bone
29	chr3:99552800-99561800	Weak transcription	Fetal Muscle Leg	muscle
30	chr3:99552800-99562000	Weak transcription	Adipose Nuclei	Adipose
31	chr3:99552800-99562400	Weak transcription	Pancreas	Pancrea
32	chr3:99553000-99561800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr3:99553400-99557000	Weak transcription	Aorta	Aorta
34	chr3:99554000-99562400	Weak transcription	GM12878-XiMat	blood
35	chr3:99554400-99557200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
36	chr3:99554800-99558200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr3:99554800-99561600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr3:99554800-99561800	Weak transcription	Hela-S3	cervix
39	chr3:99555400-99557000	Enhancers	Small Intestine	intestine
40	chr3:99555800-99558000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
41	chr3:99555800-99562000	Weak transcription	Ovary	ovary
42	chr3:99556200-99557200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr3:99556400-99557400	Enhancers	Fetal Intestine Large	intestine
44	chr3:99556400-99557400	Weak transcription	HUVEC	blood vessel
45	chr3:99556600-99557000	Enhancers	Duodenum Mucosa	Duodenum
46	chr3:99556600-99557200	Enhancers	Fetal Intestine Small	intestine
47	chr3:99556600-99557400	Enhancers	Rectal Mucosa Donor 31	rectum
48	chr3:99556600-99562000	Weak transcription	Duodenum Smooth Muscle	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links