Variant report

Variant	rs182280
Chromosome Location	chr6:34287187-34287188
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:34283435..34288525-chr6:34290742..34294904,6	K562	blood:
2	chr6:34287059..34289393-chr6:34361002..34363202,2	K562	blood:
3	chr6:34277286..34279366-chr6:34285651..34287464,2	K562	blood:
4	chr6:34286471..34290477-chr6:34292697..34296631,5	K562	blood:
5	chr6:34285140..34288176-chr6:34300410..34302551,3	MCF-7	breast:
6	chr6:34284086..34287812-chr6:34358809..34361485,3	K562	blood:
7	chr6:34209005..34211629-chr6:34285678..34287201,2	K562	blood:

Variant related genes	Relation type
ENSG00000272325	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs172280	1.00[YRI][hapmap]
rs1889733	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs206922	1.00[YRI][hapmap]
rs206928	1.00[YRI][hapmap]
rs206929	1.00[AMR][1000 genomes]
rs206931	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs206932	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs206933	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs206934	1.00[AMR][1000 genomes]
rs206938	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs206939	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs206940	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2395557	1.00[AMR][1000 genomes]
rs2395558	1.00[AMR][1000 genomes]
rs2395563	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs2395565	1.00[AMR][1000 genomes]
rs2395566	1.00[AMR][1000 genomes]
rs2840286	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs3846865	1.00[AMR][1000 genomes]
rs3846870	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs3857561	1.00[AMR][1000 genomes]
rs443351	1.00[AMR][1000 genomes]
rs453919	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs460389	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs462194	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs466031	1.00[YRI][hapmap]
rs4713778	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs6457780	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs6908420	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs6918865	1.00[AMR][1000 genomes]
rs7760590	1.00[AMR][1000 genomes]
rs7773372	1.00[YRI][hapmap]
rs7774674	1.00[AMR][1000 genomes]
rs9394233	1.00[YRI][hapmap]
rs9461986	1.00[AMR][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	esv1798756	chr6:34203406-34319041	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	esv1798835	chr6:34204183-34319041	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	esv1792088	chr6:34204285-34318837	Genic enhancers Weak transcription Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
4	esv1793127	chr6:34204285-34319041	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
5	esv1794528	chr6:34267024-34308816	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:34261800-34330800	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr6:34262000-34289000	Weak transcription	Hela-S3	cervix
3	chr6:34262000-34292800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr6:34262200-34295400	Weak transcription	Duodenum Mucosa	Duodenum
5	chr6:34262200-34301200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr6:34262800-34290800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr6:34263800-34288400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr6:34264000-34299000	Weak transcription	Dnd41	blood
9	chr6:34272600-34288200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr6:34274400-34306400	Weak transcription	Brain Germinal Matrix	brain
11	chr6:34274400-34309000	Weak transcription	NHDF-Ad	bronchial
12	chr6:34275200-34298000	Weak transcription	Fetal Muscle Trunk	muscle
13	chr6:34275400-34289400	Weak transcription	HUVEC	blood vessel
14	chr6:34275800-34299600	Weak transcription	Lung	lung
15	chr6:34280800-34295600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr6:34281400-34288200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr6:34282400-34287200	Enhancers	Primary hematopoietic stem cells	blood
18	chr6:34282600-34287600	Enhancers	Skeletal Muscle Female	skeletal muscle
19	chr6:34284000-34287200	Enhancers	Primary B cells from cord blood	blood
20	chr6:34284000-34287400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr6:34284000-34287800	Enhancers	Primary B cells from peripheral blood	blood
22	chr6:34284000-34288000	Enhancers	Fetal Heart	heart
23	chr6:34284000-34301600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr6:34284000-34308200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr6:34284200-34287200	Enhancers	Colon Smooth Muscle	Colon
26	chr6:34284200-34287400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr6:34284400-34287200	Enhancers	Adipose Nuclei	Adipose
28	chr6:34284400-34287600	Enhancers	Right Atrium	heart
29	chr6:34284600-34293000	Weak transcription	Fetal Brain Female	brain
30	chr6:34284600-34300400	Weak transcription	Primary T cells from cord blood	blood
31	chr6:34284800-34287600	Enhancers	Fetal Lung	lung
32	chr6:34284800-34289400	Enhancers	Fetal Intestine Large	intestine
33	chr6:34284800-34292600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr6:34284800-34299000	Weak transcription	Primary neutrophils fromperipheralblood	blood
35	chr6:34284800-34310800	Weak transcription	Primary T cells fromperipheralblood	blood
36	chr6:34285000-34288000	Enhancers	Fetal Intestine Small	intestine
37	chr6:34285000-34305600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
38	chr6:34285200-34287600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
39	chr6:34285200-34330600	Weak transcription	Thymus	Thymus
40	chr6:34285400-34287400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr6:34285400-34292400	Weak transcription	HSMMtube	muscle
42	chr6:34285400-34299200	Weak transcription	HSMM	muscle
43	chr6:34285400-34305200	Weak transcription	Primary T helper cells fromperipheralblood	blood
44	chr6:34285400-34305400	Weak transcription	Primary T helper cells PMA-I stimulated	--
45	chr6:34285400-34307800	Weak transcription	Liver	Liver
46	chr6:34285800-34287400	Enhancers	Fetal Stomach	stomach
47	chr6:34285800-34308800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
48	chr6:34285800-34326600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
49	chr6:34286000-34287400	Enhancers	Stomach Mucosa	stomach
50	chr6:34286000-34287400	Flanking Active TSS	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links