Variant report

Variant	rs61741499
Chromosome Location	chr19:37853375-37853376
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:37851946..37854387-chr19:37859960..37862069,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000189164	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs1016291	0.81[ASN][1000 genomes]
rs11666138	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11666602	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11667853	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11667866	1.00[EUR][1000 genomes]
rs11668217	1.00[EUR][1000 genomes]
rs11668546	1.00[EUR][1000 genomes]
rs11671057	1.00[EUR][1000 genomes]
rs11672033	1.00[ASN][1000 genomes]
rs11672064	1.00[EUR][1000 genomes]
rs16974848	0.94[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs2216690	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34169829	0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs34809375	0.94[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7259638	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs8106641	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8112900	0.88[ASN][1000 genomes]
rs868096	0.94[AMR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv918028	chr19:37020645-38014526	Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
2	esv2757695	chr19:37794850-38051606	Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	esv2758759	chr19:37794850-38051606	ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
4	nsv1057688	chr19:37828019-37988253	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:37826600-37856200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr19:37826600-37861600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr19:37826800-37853400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr19:37827000-37853400	Weak transcription	Stomach Mucosa	stomach
5	chr19:37828000-37855800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr19:37830000-37853600	Strong transcription	HUES64 Cell Line	embryonic stem cell
7	chr19:37839800-37853600	Weak transcription	Fetal Heart	heart
8	chr19:37841200-37855200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr19:37842600-37855400	ZNF genes & repeats	Primary hematopoietic stem cells	blood
10	chr19:37842800-37856600	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr19:37843800-37855800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr19:37843800-37857600	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
13	chr19:37844000-37857000	ZNF genes & repeats	Liver	Liver
14	chr19:37845400-37855800	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
15	chr19:37845600-37853600	Strong transcription	Fetal Muscle Trunk	muscle
16	chr19:37845600-37855800	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr19:37846200-37856400	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr19:37846400-37854600	ZNF genes & repeats	Primary neutrophils fromperipheralblood	blood
19	chr19:37846600-37853600	Strong transcription	Skeletal Muscle Female	skeletal muscle
20	chr19:37847000-37854200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
21	chr19:37847800-37854800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
22	chr19:37848000-37853400	Strong transcription	Skeletal Muscle Male	skeletal muscle
23	chr19:37848000-37853600	Weak transcription	Psoas Muscle	Psoas
24	chr19:37848200-37854400	Strong transcription	Primary T cells fromperipheralblood	blood
25	chr19:37848200-37855200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
26	chr19:37848400-37853400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr19:37848600-37854400	Strong transcription	Fetal Muscle Leg	muscle
28	chr19:37848600-37855200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
29	chr19:37849000-37853600	Strong transcription	Primary T cells from cord blood	blood
30	chr19:37849000-37854600	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood
31	chr19:37849000-37854800	Strong transcription	Fetal Stomach	stomach
32	chr19:37849200-37857000	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr19:37849800-37853600	Strong transcription	HUES48 Cell Line	embryonic stem cell
34	chr19:37850000-37853600	Strong transcription	Primary B cells from peripheral blood	blood
35	chr19:37850000-37853600	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
36	chr19:37850000-37854200	Strong transcription	Placenta	Placenta
37	chr19:37850000-37854400	Strong transcription	Primary T helper naive cells from peripheral blood	blood
38	chr19:37850000-37854800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr19:37850000-37855200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr19:37850000-37855200	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
41	chr19:37850000-37855600	Strong transcription	Stomach Smooth Muscle	stomach
42	chr19:37850000-37856800	ZNF genes & repeats	A549	lung
43	chr19:37850200-37853600	Strong transcription	H1 Cell Line	embryonic stem cell
44	chr19:37850200-37854000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
45	chr19:37850200-37854800	Strong transcription	Osteobl	bone
46	chr19:37850200-37855400	ZNF genes & repeats	GM12878-XiMat	blood
47	chr19:37850200-37856000	Strong transcription	Fetal Lung	lung
48	chr19:37850600-37855200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr19:37850600-37855200	Strong transcription	Brain Cingulate Gyrus	brain
50	chr19:37850600-37855400	Strong transcription	Brain Anterior Caudate	brain

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