Variant report

Variant	rs58598913
Chromosome Location	chr4:102200745-102200746
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	chr4:102199385..102202283-chr4:102207975..102210015,2	MCF-7	breast:
2	chr4:102191153..102193723-chr4:102199346..102202643,3	MCF-7	breast:

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10004830	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10015480	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10019627	1.00[EUR][1000 genomes]
rs10027301	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs17030915	1.00[EUR][1000 genomes]
rs17030959	1.00[EUR][1000 genomes]
rs17030989	1.00[EUR][1000 genomes]
rs28379119	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28421266	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28464050	1.00[EUR][1000 genomes]
rs28491829	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28534411	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28542998	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28553282	1.00[EUR][1000 genomes]
rs28614035	1.00[EUR][1000 genomes]
rs28638143	1.00[EUR][1000 genomes]
rs28640942	1.00[EUR][1000 genomes]
rs28675750	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28723066	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58084948	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58898502	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72919782	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs72919785	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9998913	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931418	chr4:101500167-102443207	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv999741	chr4:102009017-102454115	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
3	nsv537199	chr4:102009017-102454115	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1004766	chr4:102009017-102713765	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
5	nsv537200	chr4:102009017-102713765	Weak transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
6	nsv1011351	chr4:102056024-102450302	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:102180600-102203000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr4:102184000-102203200	Weak transcription	Primary hematopoietic stem cells	blood
3	chr4:102188800-102203200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr4:102191400-102202200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
5	chr4:102192800-102208600	Weak transcription	Fetal Kidney	kidney
6	chr4:102193000-102203400	Weak transcription	Brain Angular Gyrus	brain
7	chr4:102193800-102201800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr4:102194000-102205200	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr4:102194200-102203000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr4:102195400-102203400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr4:102196600-102203000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr4:102197200-102200800	Weak transcription	Brain Anterior Caudate	brain
13	chr4:102197200-102202200	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr4:102197400-102203600	Weak transcription	Left Ventricle	heart
15	chr4:102197400-102203600	Weak transcription	Pancreas	Pancrea
16	chr4:102197800-102201400	Enhancers	A549	lung
17	chr4:102198200-102201000	Enhancers	HSMM	muscle
18	chr4:102198400-102201200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr4:102198400-102201200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr4:102198400-102201400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr4:102198400-102206800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr4:102198600-102201200	Enhancers	Muscle Satellite Cultured Cells	--
23	chr4:102198600-102201400	Enhancers	NH-A	brain
24	chr4:102198600-102201400	Enhancers	Osteobl	bone
25	chr4:102198600-102201600	Enhancers	NHDF-Ad	bronchial
26	chr4:102198600-102203400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr4:102198800-102200800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr4:102198800-102200800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr4:102198800-102200800	Weak transcription	HSMMtube	muscle
30	chr4:102198800-102201600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
31	chr4:102198800-102201600	Enhancers	NHLF	lung
32	chr4:102198800-102203200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
33	chr4:102198800-102207800	Enhancers	HUES64 Cell Line	embryonic stem cell
34	chr4:102199000-102201200	Enhancers	ES-I3 Cell Line	embryonic stem cell
35	chr4:102199400-102201000	Enhancers	Psoas Muscle	Psoas
36	chr4:102199400-102201000	Enhancers	Sigmoid Colon	Sigmoid Colon
37	chr4:102199400-102201000	Enhancers	Skeletal Muscle Male	skeletal muscle
38	chr4:102199600-102201200	Enhancers	Fetal Stomach	stomach
39	chr4:102199600-102201200	Enhancers	Skeletal Muscle Female	skeletal muscle
40	chr4:102199600-102201600	Enhancers	HUES6 Cell Line	embryonic stem cell
41	chr4:102199600-102203600	Weak transcription	Small Intestine	intestine
42	chr4:102199600-102205200	Enhancers	Primary B cells from peripheral blood	blood
43	chr4:102199600-102210400	Enhancers	iPS-18 Cell Line	embryonic stem cell
44	chr4:102199800-102201000	Enhancers	Fetal Heart	heart
45	chr4:102199800-102201000	Enhancers	Ovary	ovary
46	chr4:102199800-102202400	Weak transcription	Primary T cells from cord blood	blood
47	chr4:102199800-102203000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
48	chr4:102199800-102206800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
49	chr4:102200000-102201000	Enhancers	HUES48 Cell Line	embryonic stem cell
50	chr4:102200000-102211800	Weak transcription	HMEC	breast

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