Variant report

Variant	rs900031
Chromosome Location	chr4:1192356-1192357
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:2)
CpG islands
(count:0)
Chromatin interactive
region (count:3)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:2 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MAFK	chr4:1192313-1192484	HepG2	liver:	n/a	n/a
2	MAFK	chr4:1192034-1192493	IMR90	lung:	n/a	n/a

No data

(count:3 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr4:1191025..1193486-chr4:1193640..1195539,2	MCF-7	breast:
2	chr4:1192255..1195518-chr4:1197581..1201308,4	MCF-7	breast:
3	chr4:1009769..1012463-chr4:1190367..1192538,2	K562	blood:

(count:1 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-AC092535.1-1	chr4:1189571-1193835	NONHSAT094677

No data

Variant related genes	Relation type
SPON2	TF binding region
ENSG00000159674	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs11932230	1.00[EUR][1000 genomes]
rs1250087	1.00[EUR][1000 genomes]
rs1250127	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1272043	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1680077	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2127909	1.00[EUR][1000 genomes]
rs4246689	1.00[EUR][1000 genomes]
rs4974626	1.00[EUR][1000 genomes]
rs4974635	1.00[EUR][1000 genomes]
rs4974645	1.00[EUR][1000 genomes]
rs57106389	1.00[EUR][1000 genomes]
rs58168130	1.00[EUR][1000 genomes]
rs61053739	1.00[EUR][1000 genomes]
rs6836809	1.00[EUR][1000 genomes]
rs6836952	1.00[EUR][1000 genomes]
rs7659524	1.00[EUR][1000 genomes]
rs7676912	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:21 , 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	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
4	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
5	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
6	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
7	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
8	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
9	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
10	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
11	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
12	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
13	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
14	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
15	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
16	nsv461153	chr4:1174861-1254930	Genic enhancers Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
17	nsv593279	chr4:1174861-1254930	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
18	nsv461154	chr4:1179213-1254930	Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
19	nsv593280	chr4:1179213-1254930	Flanking Active TSS Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
20	nsv878332	chr4:1179213-1254930	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
21	nsv997971	chr4:1191256-1518521	Genic enhancers Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:1180800-1194000	Weak transcription	Primary monocytes fromperipheralblood	blood
2	chr4:1181200-1193400	Weak transcription	Primary T helper cells fromperipheralblood	blood
3	chr4:1181200-1193600	Weak transcription	Primary T helper cells PMA-I stimulated	--
4	chr4:1181600-1193600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr4:1184400-1194000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr4:1185000-1204200	Enhancers	Fetal Muscle Leg	muscle
7	chr4:1185800-1196200	Weak transcription	Small Intestine	intestine
8	chr4:1187000-1197200	Weak transcription	HepG2	liver
9	chr4:1187200-1194000	Weak transcription	Esophagus	oesophagus
10	chr4:1187200-1194400	Weak transcription	A549	lung
11	chr4:1188000-1193800	Weak transcription	Stomach Mucosa	stomach
12	chr4:1188000-1194400	Weak transcription	Gastric	stomach
13	chr4:1188200-1193600	Weak transcription	Fetal Thymus	thymus
14	chr4:1188200-1194400	Weak transcription	Right Atrium	heart
15	chr4:1188400-1193800	Weak transcription	Fetal Intestine Large	intestine
16	chr4:1188400-1194400	Weak transcription	Left Ventricle	heart
17	chr4:1188600-1193400	Weak transcription	Colon Smooth Muscle	Colon
18	chr4:1188600-1193800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr4:1188600-1194200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr4:1188600-1194200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr4:1188600-1194400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr4:1188600-1194400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr4:1188800-1193600	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr4:1188800-1194200	Weak transcription	Cortex derived primary cultured neurospheres	brain
25	chr4:1189200-1193400	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
26	chr4:1189200-1194000	Weak transcription	Ovary	ovary
27	chr4:1189200-1194400	Weak transcription	Brain Anterior Caudate	brain
28	chr4:1189400-1194800	Weak transcription	Brain Hippocampus Middle	brain
29	chr4:1189600-1192600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
30	chr4:1189600-1192800	Strong transcription	Primary T cells from cord blood	blood
31	chr4:1189800-1193400	Weak transcription	Adipose Nuclei	Adipose
32	chr4:1189800-1193400	Weak transcription	Stomach Smooth Muscle	stomach
33	chr4:1189800-1193800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
34	chr4:1190000-1192600	Strong transcription	Liver	Liver
35	chr4:1190200-1193400	Weak transcription	Fetal Lung	lung
36	chr4:1190400-1194200	Weak transcription	Right Ventricle	heart
37	chr4:1190800-1193400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
38	chr4:1190800-1193800	Weak transcription	Thymus	Thymus
39	chr4:1191000-1193400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr4:1191000-1193400	Weak transcription	Duodenum Mucosa	Duodenum
41	chr4:1191000-1193400	Weak transcription	Spleen	Spleen
42	chr4:1191000-1193600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
43	chr4:1191000-1193600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
44	chr4:1191000-1193600	Weak transcription	NHDF-Ad	bronchial
45	chr4:1191000-1193800	Weak transcription	Rectal Mucosa Donor 29	rectum
46	chr4:1191000-1194000	Weak transcription	Rectal Mucosa Donor 31	rectum
47	chr4:1191000-1194400	Weak transcription	Sigmoid Colon	Sigmoid Colon
48	chr4:1191200-1193400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr4:1191200-1193400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
50	chr4:1191200-1193800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links