Variant report

Variant	rs7754116
Chromosome Location	chr6:57201182-57201183
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs1013893	0.93[ASN][1000 genomes]
rs1013894	0.86[ASN][1000 genomes]
rs12664535	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1618210	0.86[ASN][1000 genomes]
rs1755833	0.86[ASN][1000 genomes]
rs2098172	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4715653	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4715655	0.86[ASN][1000 genomes]
rs4715656	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4715657	0.86[ASN][1000 genomes]
rs9357943	0.86[ASN][1000 genomes]
rs9357944	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9382701	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533050	chr6:56504480-57297586	Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
2	esv2758056	chr6:57184541-57562604	Weak transcription Active TSS ZNF genes & repeats Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
3	esv2759432	chr6:57184541-57562604	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1034139	chr6:57192993-57253423	ZNF genes & repeats Weak transcription Enhancers Strong transcription Bivalent Enhancer Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv1022055	chr6:57192993-57353692	Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Weak transcription Genic enhancers Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:57184200-57201200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr6:57193000-57203000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr6:57193600-57207400	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr6:57194600-57201200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
5	chr6:57194600-57202000	Weak transcription	Fetal Stomach	stomach
6	chr6:57194600-57214800	Weak transcription	Small Intestine	intestine
7	chr6:57194600-57215200	Weak transcription	Ovary	ovary
8	chr6:57194600-57226200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr6:57194600-57244800	Weak transcription	Spleen	Spleen
10	chr6:57194800-57202000	Weak transcription	Primary T cells fromperipheralblood	blood
11	chr6:57194800-57202200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr6:57194800-57206000	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr6:57194800-57211600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr6:57195000-57201400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr6:57195600-57201400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chr6:57195600-57202400	Weak transcription	Duodenum Mucosa	Duodenum
17	chr6:57195600-57204600	Weak transcription	Colon Smooth Muscle	Colon
18	chr6:57195600-57212600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
19	chr6:57195600-57238400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr6:57196200-57204000	Weak transcription	Brain Hippocampus Middle	brain
21	chr6:57197600-57201200	Weak transcription	Liver	Liver
22	chr6:57198200-57212400	Weak transcription	Primary T helper cells fromperipheralblood	blood
23	chr6:57199000-57213800	Weak transcription	K562	blood
24	chr6:57199600-57201600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr6:57199600-57202000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
26	chr6:57199600-57202600	Weak transcription	HepG2	liver
27	chr6:57199600-57206000	Weak transcription	Thymus	Thymus
28	chr6:57199600-57206000	Weak transcription	NHDF-Ad	bronchial
29	chr6:57199600-57206800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr6:57199600-57207400	Weak transcription	NH-A	brain
31	chr6:57199600-57211800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr6:57199600-57213200	Weak transcription	HSMM	muscle
33	chr6:57199600-57213400	Weak transcription	Fetal Thymus	thymus
34	chr6:57199600-57214600	Weak transcription	Muscle Satellite Cultured Cells	--
35	chr6:57199600-57214800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr6:57199600-57215200	Weak transcription	Osteobl	bone
37	chr6:57199600-57221000	Weak transcription	Hela-S3	cervix
38	chr6:57199600-57229000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr6:57199800-57201400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr6:57199800-57201400	Weak transcription	A549	lung
41	chr6:57199800-57201800	Weak transcription	Cortex derived primary cultured neurospheres	brain
42	chr6:57199800-57201800	Weak transcription	Adipose Nuclei	Adipose
43	chr6:57199800-57202000	Weak transcription	Primary T helper cells PMA-I stimulated	--
44	chr6:57199800-57203400	Weak transcription	H9 Cell Line	embryonic stem cell
45	chr6:57199800-57204600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr6:57199800-57205800	Weak transcription	Primary T cells from cord blood	blood
47	chr6:57199800-57206200	Weak transcription	Brain Germinal Matrix	brain
48	chr6:57199800-57206400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr6:57199800-57206600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr6:57199800-57208200	Weak transcription	Rectal Smooth Muscle	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links