Variant report

Variant	rs55901822
Chromosome Location	chr6:15492000-15492001
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:15247080..15248984-chr6:15490936..15492452,2	MCF-7	breast:
2	chr6:15480753..15482538-chr6:15489895..15492218,2	K562	blood:
3	chr6:15478158..15480159-chr6:15489862..15492490,2	K562	blood:

Variant related genes	Relation type
ENSG00000235488	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11753594	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11756854	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11756950	0.80[AMR][1000 genomes]
rs11758484	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11759978	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs16876519	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2327897	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2876393	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35947355	0.84[AFR][1000 genomes]
rs41267698	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs55862621	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs56070118	0.83[EUR][1000 genomes]
rs56381700	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58121172	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72836316	0.84[EUR][1000 genomes]
rs72836347	0.85[EUR][1000 genomes]
rs72837821	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72837824	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv538140	chr6:15217899-15547127	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS 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	29 gene(s)	inside rSNPs	diseases
2	nsv538141	chr6:15234675-15509163	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers 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	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:142 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15471000-15502000	Weak transcription	A549	lung
2	chr6:15484800-15496400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:15486800-15502000	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr6:15487200-15508000	Strong transcription	Monocytes-CD14+_RO01746	blood
5	chr6:15488800-15493000	Genic enhancers	ES-I3 Cell Line	embryonic stem cell
6	chr6:15489000-15492600	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
7	chr6:15489200-15495800	Weak transcription	HMEC	breast
8	chr6:15489200-15496200	Weak transcription	Small Intestine	intestine
9	chr6:15489200-15496800	Weak transcription	Colonic Mucosa	Colon
10	chr6:15489200-15504400	Weak transcription	Fetal Brain Female	brain
11	chr6:15489400-15493000	Genic enhancers	Fetal Thymus	thymus
12	chr6:15489400-15493200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr6:15489600-15492800	Genic enhancers	Thymus	Thymus
14	chr6:15489600-15493400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr6:15489600-15495400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr6:15489800-15492000	Weak transcription	NHEK	skin
17	chr6:15489800-15492400	Enhancers	Duodenum Mucosa	Duodenum
18	chr6:15489800-15492400	Genic enhancers	Fetal Intestine Small	intestine
19	chr6:15489800-15493000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr6:15489800-15495200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
21	chr6:15489800-15495600	Weak transcription	Aorta	Aorta
22	chr6:15490000-15492000	Enhancers	iPS-18 Cell Line	embryonic stem cell
23	chr6:15490000-15492200	Enhancers	Primary T helper cells PMA-I stimulated	--
24	chr6:15490000-15492200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr6:15490000-15492600	Genic enhancers	Primary B cells from peripheral blood	blood
26	chr6:15490000-15492600	Enhancers	Left Ventricle	heart
27	chr6:15490000-15492800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr6:15490000-15492800	Enhancers	Skeletal Muscle Male	skeletal muscle
29	chr6:15490000-15493000	Enhancers	Skeletal Muscle Female	skeletal muscle
30	chr6:15490000-15494600	Genic enhancers	HUES64 Cell Line	embryonic stem cell
31	chr6:15490000-15495800	Weak transcription	Liver	Liver
32	chr6:15490000-15496200	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr6:15490000-15496400	Weak transcription	Rectal Mucosa Donor 31	rectum
34	chr6:15490200-15492200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
35	chr6:15490200-15492200	Weak transcription	Primary neutrophils fromperipheralblood	blood
36	chr6:15490200-15492200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr6:15490200-15492400	Enhancers	Brain Hippocampus Middle	brain
38	chr6:15490200-15492400	Enhancers	Brain Substantia Nigra	brain
39	chr6:15490200-15492600	Enhancers	Primary T helper cells fromperipheralblood	blood
40	chr6:15490200-15492800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr6:15490200-15493000	Enhancers	Primary T cells from cord blood	blood
42	chr6:15490200-15493200	Weak transcription	Cortex derived primary cultured neurospheres	brain
43	chr6:15490200-15493400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
44	chr6:15490200-15495200	Weak transcription	Lung	lung
45	chr6:15490200-15495600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr6:15490200-15495600	Weak transcription	Esophagus	oesophagus
47	chr6:15490200-15496400	Weak transcription	Gastric	stomach
48	chr6:15490200-15496400	Weak transcription	Pancreas	Pancrea
49	chr6:15490400-15492200	Enhancers	HepG2	liver
50	chr6:15490400-15493000	Enhancers	Right Ventricle	heart

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