Variant report

Variant	rs55716204
Chromosome Location	chr3:195162086-195162087
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:195081898..195084336-chr3:195160220..195162508,2	K562	blood:
2	chr3:194980181..194984046-chr3:195161738..195167079,6	K562	blood:
3	chr3:195159870..195162612-chr3:195162648..195164644,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000114331	Chromatin interaction
ENSG00000173950	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11926961	1.00[AMR][1000 genomes]
rs2095969	1.00[AMR][1000 genomes]
rs56309159	1.00[AMR][1000 genomes]
rs56911559	1.00[AMR][1000 genomes]
rs57367947	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58212573	1.00[AMR][1000 genomes]
rs58381246	1.00[AMR][1000 genomes]
rs58471352	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60222890	1.00[AMR][1000 genomes]
rs60284665	1.00[AMR][1000 genomes]
rs60560609	1.00[AMR][1000 genomes]
rs60584652	1.00[AMR][1000 genomes]
rs6764918	1.00[AMR][1000 genomes]
rs6790118	1.00[AMR][1000 genomes]
rs6790784	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6809102	1.00[AMR][1000 genomes]
rs73890763	1.00[AMR][1000 genomes]
rs73890764	1.00[AMR][1000 genomes]
rs73890767	1.00[AMR][1000 genomes]
rs73890778	1.00[AMR][1000 genomes]
rs73890782	1.00[AMR][1000 genomes]
rs73890784	1.00[AMR][1000 genomes]
rs73890791	1.00[AMR][1000 genomes]
rs73890793	1.00[AMR][1000 genomes]
rs73890826	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73890827	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73893622	1.00[AMR][1000 genomes]
rs73893623	1.00[AMR][1000 genomes]
rs73893628	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014826	chr3:194834615-195631793	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	73 gene(s)	inside rSNPs	diseases
2	nsv536876	chr3:194834615-195631793	Strong transcription Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	73 gene(s)	inside rSNPs	diseases
3	nsv533904	chr3:194868329-195438728	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	65 gene(s)	inside rSNPs	diseases
4	esv1832781	chr3:194902818-195528226	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	62 gene(s)	inside rSNPs	diseases
5	nsv432508	chr3:194916131-195478861	Strong transcription Enhancers Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	59 gene(s)	inside rSNPs	diseases
6	nsv432510	chr3:194935314-195478861	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	59 gene(s)	inside rSNPs	diseases
7	nsv1005519	chr3:194964301-195340515	Active TSS Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases
8	nsv432511	chr3:194986167-195479748	Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Genic enhancers 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	57 gene(s)	inside rSNPs	diseases
9	nsv432512	chr3:195007260-195475989	Enhancers Weak transcription Active TSS Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS 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	54 gene(s)	inside rSNPs	diseases
10	nsv878138	chr3:195057001-195477791	Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription Weak transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	53 gene(s)	inside rSNPs	diseases
11	nsv1006229	chr3:195071421-195474751	Weak transcription Flanking Active TSS Active TSS Genic enhancers Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	53 gene(s)	inside rSNPs	diseases
12	esv2754364	chr3:195102703-195553690	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	54 gene(s)	inside rSNPs	diseases
13	esv2757028	chr3:195102787-195479748	Active TSS Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	53 gene(s)	inside rSNPs	diseases
14	esv2759213	chr3:195102787-196071593	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers Bivalent Enhancer Genic enhancers 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	144 gene(s)	inside rSNPs	diseases
15	nsv432513	chr3:195121072-195478861	Strong transcription Weak transcription Active TSS Enhancers Bivalent Enhancer Genic enhancers Flanking Active TSS 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	52 gene(s)	inside rSNPs	diseases
16	nsv432514	chr3:195121110-195478861	Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	52 gene(s)	inside rSNPs	diseases
17	nsv432515	chr3:195121110-195528226	Weak transcription Enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	54 gene(s)	inside rSNPs	diseases
18	nsv829824	chr3:195131067-195286698	Weak transcription Active TSS Strong transcription Genic enhancers Enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:195145600-195162400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr3:195147000-195162200	Weak transcription	Esophagus	oesophagus
3	chr3:195147800-195162400	Weak transcription	Left Ventricle	heart
4	chr3:195159600-195162200	Weak transcription	Stomach Mucosa	stomach
5	chr3:195160200-195162200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
6	chr3:195160200-195162200	Weak transcription	Fetal Muscle Leg	muscle
7	chr3:195160200-195162200	Weak transcription	Ovary	ovary
8	chr3:195160200-195162400	Weak transcription	Lung	lung
9	chr3:195160200-195162600	Weak transcription	Spleen	Spleen
10	chr3:195160600-195162200	Enhancers	Brain Substantia Nigra	brain
11	chr3:195160800-195162200	Enhancers	Colon Smooth Muscle	Colon
12	chr3:195160800-195162600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
13	chr3:195161000-195162200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr3:195161000-195162200	Enhancers	Liver	Liver
15	chr3:195161000-195162200	Enhancers	Brain Cingulate Gyrus	brain
16	chr3:195161000-195162200	Enhancers	Fetal Lung	lung
17	chr3:195161000-195162400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr3:195161000-195162600	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
19	chr3:195161000-195162600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr3:195161000-195162800	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
21	chr3:195161000-195162800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr3:195161200-195162200	Enhancers	Adipose Nuclei	Adipose
23	chr3:195161200-195162200	Enhancers	Rectal Smooth Muscle	rectum
24	chr3:195161200-195162400	Enhancers	Small Intestine	intestine
25	chr3:195161200-195164200	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr3:195161200-195164200	Active TSS	GM12878-XiMat	blood
27	chr3:195161200-195164600	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr3:195161400-195162600	Flanking Active TSS	Primary T cells from cord blood	blood
29	chr3:195161400-195162600	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
30	chr3:195161400-195162600	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr3:195161400-195163000	Flanking Active TSS	Primary hematopoietic stem cells	blood
32	chr3:195161400-195163200	Flanking Active TSS	Primary B cells from cord blood	blood
33	chr3:195161400-195164200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr3:195161400-195164200	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr3:195161400-195164200	Active TSS	K562	blood
36	chr3:195161600-195162200	Enhancers	Fetal Heart	heart
37	chr3:195161600-195162800	Flanking Active TSS	HUVEC	blood vessel
38	chr3:195161600-195164200	Active TSS	Muscle Satellite Cultured Cells	--
39	chr3:195161800-195162200	Flanking Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr3:195161800-195162200	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
41	chr3:195161800-195162200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
42	chr3:195161800-195162200	Enhancers	Skeletal Muscle Female	skeletal muscle
43	chr3:195161800-195162200	Flanking Active TSS	NHLF	lung
44	chr3:195161800-195162400	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr3:195161800-195162400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
46	chr3:195161800-195162400	Enhancers	Fetal Brain Male	brain
47	chr3:195161800-195162400	Flanking Active TSS	Hela-S3	cervix
48	chr3:195161800-195162600	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr3:195161800-195162600	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
50	chr3:195161800-195162600	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links