Variant report

Variant	rs535584
Chromosome Location	chr6:33558513-33558514
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:16)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:16 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:33558047..33560338-chr6:33737884..33740577,2	K562	blood:
2	chr6:33557862..33560664-chr6:33667390..33670226,3	MCF-7	breast:
3	chr6:33557569..33559223-chr6:33672789..33674425,2	K562	blood:
4	chr6:33557387..33558718-chr6:33670243..33670853,3	K562	blood:
5	chr6:33556084..33559190-chr6:33561463..33564085,3	K562	blood:
6	chr6:33556676..33558804-chr6:33667221..33669587,2	K562	blood:
7	chr6:33555432..33562879-chr6:33670455..33680174,12	K562	blood:
8	chr6:33557115..33558665-chr6:33640289..33641376,5	K562	blood:
9	chr6:33556983..33559426-chr6:33569915..33571800,2	MCF-7	breast:
10	chr6:33557066..33558559-chr6:33667900..33669281,8	K562	blood:
11	chr6:33558226..33560678-chr6:33600632..33602616,2	K562	blood:
12	chr6:33557038..33558663-chr6:33565418..33568204,3	K562	blood:
13	chr6:33551039..33553771-chr6:33556676..33559187,3	MCF-7	breast:
14	chr6:33550971..33553641-chr6:33557216..33560603,4	K562	blood:
15	chr6:33556717..33560050-chr6:33586677..33588878,3	MCF-7	breast:
16	chr6:33557345..33558657-chr6:33600025..33600783,6	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000096433	Chromatin interaction
ENSG00000137288	Chromatin interaction
ENSG00000204188	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1536042	1.00[ASN][1000 genomes]
rs16869178	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1705000	1.00[ASN][1000 genomes]
rs1755041	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1755042	1.00[ASN][1000 genomes]
rs1755054	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1794686	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1794688	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2068236	1.00[ASN][1000 genomes]
rs2147655	1.00[ASN][1000 genomes]
rs2395451	1.00[ASN][1000 genomes]
rs4711333	1.00[ASN][1000 genomes]
rs4711334	1.00[ASN][1000 genomes]
rs4713647	1.00[ASN][1000 genomes]
rs4713652	1.00[ASN][1000 genomes]
rs472990	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs480568	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs485623	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs542056	1.00[ASN][1000 genomes]
rs542725	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs549719	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55700437	1.00[ASN][1000 genomes]
rs557559	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs560218	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs561276	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs572824	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59572422	1.00[ASN][1000 genomes]
rs61687548	1.00[ASN][1000 genomes]
rs6900438	1.00[ASN][1000 genomes]
rs6906810	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6928341	1.00[ASN][1000 genomes]
rs71536195	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7752930	1.00[ASN][1000 genomes]
rs7757391	1.00[ASN][1000 genomes]
rs7757722	1.00[ASN][1000 genomes]
rs7759154	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7775313	1.00[ASN][1000 genomes]
rs806604	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs806605	0.89[EUR][1000 genomes]
rs9368770	1.00[ASN][1000 genomes]
rs9689326	1.00[EUR][1000 genomes];1.00[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	nsv462896	chr6:33534880-33588147	Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv602833	chr6:33534880-33588147	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	nsv885770	chr6:33543409-33614127	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
4	nsv830638	chr6:33551202-33711346	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	46 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:99 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:33548600-33560600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr6:33553800-33560400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr6:33554000-33560400	Weak transcription	Primary T helper cells fromperipheralblood	blood
4	chr6:33554000-33560400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
5	chr6:33554000-33560600	Weak transcription	Brain Angular Gyrus	brain
6	chr6:33554000-33560800	Weak transcription	Brain Hippocampus Middle	brain
7	chr6:33554200-33560400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr6:33554200-33560600	Weak transcription	Primary hematopoietic stem cells	blood
9	chr6:33554200-33560800	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr6:33555800-33558800	Enhancers	Brain Anterior Caudate	brain
11	chr6:33555800-33561400	Enhancers	Spleen	Spleen
12	chr6:33556400-33559400	Enhancers	Fetal Muscle Trunk	muscle
13	chr6:33556400-33559400	Enhancers	Fetal Muscle Leg	muscle
14	chr6:33556400-33559600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr6:33556400-33559600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
16	chr6:33556600-33559200	Enhancers	HUVEC	blood vessel
17	chr6:33556600-33559600	Enhancers	Pancreas	Pancrea
18	chr6:33556600-33560600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr6:33556600-33560600	Enhancers	Fetal Intestine Large	intestine
20	chr6:33556600-33561400	Enhancers	Lung	lung
21	chr6:33556800-33559600	Enhancers	Duodenum Mucosa	Duodenum
22	chr6:33556800-33559800	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr6:33556800-33559800	Enhancers	Stomach Mucosa	stomach
24	chr6:33557000-33558800	Enhancers	Fetal Stomach	stomach
25	chr6:33557000-33559000	Enhancers	Adipose Nuclei	Adipose
26	chr6:33557000-33559000	Enhancers	Stomach Smooth Muscle	stomach
27	chr6:33557000-33559200	Enhancers	Fetal Lung	lung
28	chr6:33557000-33559200	Enhancers	Ovary	ovary
29	chr6:33557000-33559200	Enhancers	Sigmoid Colon	Sigmoid Colon
30	chr6:33557000-33559600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr6:33557000-33559600	Flanking Active TSS	HepG2	liver
32	chr6:33557000-33561400	Enhancers	HMEC	breast
33	chr6:33557200-33559000	Enhancers	Fetal Heart	heart
34	chr6:33557200-33559200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr6:33557200-33559200	Enhancers	Placenta Amnion	Placenta Amnion
36	chr6:33557200-33559400	Enhancers	NHDF-Ad	bronchial
37	chr6:33557200-33560400	Enhancers	Primary B cells from peripheral blood	blood
38	chr6:33557200-33560600	Enhancers	Placenta	Placenta
39	chr6:33557200-33560800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
40	chr6:33557400-33558600	Enhancers	Colon Smooth Muscle	Colon
41	chr6:33557400-33559000	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
42	chr6:33557400-33559200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
43	chr6:33557400-33559200	Enhancers	H1 Cell Line	embryonic stem cell
44	chr6:33557400-33559200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr6:33557400-33559200	Enhancers	iPS-20b Cell Line	embryonic stem cell
46	chr6:33557400-33559400	Enhancers	Breast Myoepithelial Primary Cells	Breast
47	chr6:33557600-33558600	Enhancers	iPS-18 Cell Line	embryonic stem cell
48	chr6:33557600-33558600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr6:33557600-33558600	Flanking Active TSS	Muscle Satellite Cultured Cells	--
50	chr6:33557600-33558600	Flanking Active TSS	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links