Variant report

Variant	rs13115935
Chromosome Location	chr4:1164552-1164553
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	chr4:1161114..1165211-chr4:1166165..1170804,4	MCF-7	breast:
2	chr4:1160924..1165328-chr4:1340425..1343058,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000159674	Chromatin interaction
ENSG00000163945	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10013662	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11931513	1.00[EUR][1000 genomes]
rs11932895	1.00[EUR][1000 genomes]
rs1383658	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1383659	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1481168	1.00[EUR][1000 genomes]
rs1680075	1.00[EUR][1000 genomes]
rs1680082	1.00[EUR][1000 genomes]
rs17164618	1.00[EUR][1000 genomes]
rs1732105	1.00[EUR][1000 genomes]
rs1871758	0.83[AFR][1000 genomes]
rs2127911	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs34082974	1.00[EUR][1000 genomes]
rs4336168	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs4465987	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs4974567	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs4974580	1.00[EUR][1000 genomes]
rs4974581	1.00[EUR][1000 genomes]
rs4974634	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs4974636	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs4974641	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs57461362	1.00[EUR][1000 genomes]
rs59318613	1.00[EUR][1000 genomes]
rs59669372	1.00[EUR][1000 genomes]
rs60410862	1.00[EUR][1000 genomes]
rs6818213	1.00[EUR][1000 genomes]
rs6834402	1.00[EUR][1000 genomes]
rs6835204	1.00[EUR][1000 genomes]
rs73069991	1.00[EUR][1000 genomes]
rs73069994	1.00[EUR][1000 genomes]
rs73071910	1.00[EUR][1000 genomes]
rs73071925	1.00[EUR][1000 genomes]
rs73073722	1.00[EUR][1000 genomes]
rs73073725	1.00[EUR][1000 genomes]
rs73073727	1.00[EUR][1000 genomes]
rs73073729	1.00[EUR][1000 genomes]
rs73796061	1.00[EUR][1000 genomes]
rs7660109	1.00[EUR][1000 genomes]
rs7691582	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs922697	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv822425	chr4:540105-1413799	Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	108 gene(s)	inside rSNPs	diseases
2	nsv530490	chr4:614355-1399150	Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	104 gene(s)	inside rSNPs	diseases
3	nsv536980	chr4:827866-1167377	Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
4	nsv1009619	chr4:901897-1215657	Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
5	nsv1003876	chr4:927509-1191316	Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
6	nsv1000381	chr4:927509-1198766	Weak transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
7	esv3339080	chr4:970630-1546223	Active TSS Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
8	nsv1005990	chr4:1015652-1167619	Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
9	nsv1012892	chr4:1086871-1176630	Enhancers Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
10	nsv829835	chr4:1097586-1304239	Enhancers Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
11	nsv878328	chr4:1141573-1990425	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	121 gene(s)	inside rSNPs	diseases
12	nsv878329	chr4:1147407-1254930	Genic enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
13	nsv878330	chr4:1147407-1523930	Strong transcription Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
14	nsv519106	chr4:1158991-1174861	Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
15	nsv593276	chr4:1159680-1227469	Flanking Active TSS Genic enhancers Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
16	nsv461151	chr4:1159680-1236840	Enhancers Flanking Bivalent TSS/Enh Strong transcription Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
17	nsv593277	chr4:1159680-1236840	Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
18	nsv878331	chr4:1159680-1254930	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
19	nsv461152	chr4:1159680-1415698	Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	70 gene(s)	inside rSNPs	diseases
20	nsv593278	chr4:1159680-1415698	Enhancers Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	70 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:1161800-1164600	Bivalent Enhancer	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr4:1161800-1165000	Weak transcription	Right Atrium	heart
3	chr4:1161800-1165200	Transcr. at gene 5' and 3'	Primary Natural Killer cells fromperipheralblood	blood
4	chr4:1162000-1164600	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
5	chr4:1162000-1165200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
6	chr4:1162000-1165200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr4:1162000-1165200	Bivalent Enhancer	Fetal Muscle Trunk	muscle
8	chr4:1162000-1166200	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr4:1162400-1164800	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
10	chr4:1162600-1164800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
11	chr4:1162600-1165200	Genic enhancers	Esophagus	oesophagus
12	chr4:1162800-1164600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr4:1163000-1165000	Weak transcription	Dnd41	blood
14	chr4:1163000-1165200	ZNF genes & repeats	Spleen	Spleen
15	chr4:1163400-1165800	Transcr. at gene 5' and 3'	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr4:1163600-1164600	Bivalent Enhancer	Fetal Muscle Leg	muscle
17	chr4:1163600-1165200	Genic enhancers	Liver	Liver
18	chr4:1163800-1164600	Strong transcription	Muscle Satellite Cultured Cells	--
19	chr4:1163800-1164600	Bivalent Enhancer	Adipose Nuclei	Adipose
20	chr4:1164000-1164600	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr4:1164000-1164800	Transcr. at gene 5' and 3'	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr4:1164000-1165200	Bivalent Enhancer	Skeletal Muscle Female	skeletal muscle
23	chr4:1164000-1166000	Transcr. at gene 5' and 3'	NHLF	lung
24	chr4:1164000-1167000	Bivalent/Poised TSS	Colon Smooth Muscle	Colon
25	chr4:1164200-1164600	Bivalent Enhancer	Primary T helper cells fromperipheralblood	blood
26	chr4:1164200-1164600	Strong transcription	Gastric	stomach
27	chr4:1164200-1164800	Bivalent Enhancer	Duodenum Mucosa	Duodenum
28	chr4:1164200-1164800	Genic enhancers	Ovary	ovary
29	chr4:1164200-1165000	Bivalent Enhancer	Sigmoid Colon	Sigmoid Colon
30	chr4:1164200-1165200	Bivalent Enhancer	Fetal Intestine Small	intestine
31	chr4:1164200-1165200	Bivalent Enhancer	Placenta	Placenta
32	chr4:1164200-1165400	Weak transcription	HepG2	liver
33	chr4:1164200-1165600	Enhancers	Pancreas	Pancrea
34	chr4:1164200-1166400	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr4:1164200-1167200	Flanking Bivalent TSS/Enh	Fetal Stomach	stomach
36	chr4:1164400-1164600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr4:1164400-1164600	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 2	blood
38	chr4:1164400-1164600	Bivalent Enhancer	Primary T helper naive cells fromperipheralblood	blood
39	chr4:1164400-1164600	Bivalent/Poised TSS	Primary T regulatory cells fromperipheralblood	blood
40	chr4:1164400-1164600	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
41	chr4:1164400-1164600	Bivalent/Poised TSS	Rectal Smooth Muscle	rectum
42	chr4:1164400-1164600	Enhancers	Right Ventricle	heart
43	chr4:1164400-1164600	Bivalent Enhancer	Stomach Smooth Muscle	stomach
44	chr4:1164400-1164800	Bivalent Enhancer	Primary T killer memory cells from peripheral blood	blood
45	chr4:1164400-1164800	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr4:1164400-1164800	Transcr. at gene 5' and 3'	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr4:1164400-1164800	Flanking Bivalent TSS/Enh	Colonic Mucosa	Colon
48	chr4:1164400-1164800	Transcr. at gene 5' and 3'	NHDF-Ad	bronchial
49	chr4:1164400-1165000	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--
50	chr4:1164400-1165000	Bivalent Enhancer	Brain Hippocampus Middle	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links