Variant report

Variant	rs1755042
Chromosome Location	chr6:33391175-33391176
allele	G/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:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:33279489..33293095-chr6:33375317..33398824,56	K562	blood:
2	chr6:33283041..33291527-chr6:33390658..33398493,18	K562	blood:
3	chr6:33389729..33391782-chr6:33598906..33600779,2	K562	blood:
4	chr6:33238168..33246812-chr6:33390354..33398427,26	K562	blood:
5	chr6:33358245..33360999-chr6:33390067..33393313,4	MCF-7	breast:
6	chr6:33237732..33247113-chr6:33390735..33401356,31	K562	blood:
7	chr6:33358171..33361215-chr6:33389565..33394982,4	MCF-7	breast:
8	chr6:33372672..33375320-chr6:33388854..33391700,2	MCF-7	breast:
9	chr6:33263595..33269524-chr6:33390524..33397848,10	K562	blood:

No data

Variant related genes	Relation type
ENSG00000237649	Chromatin interaction
ENSG00000223501	Chromatin interaction
ENSG00000231925	Chromatin interaction
ENSG00000204209	Chromatin interaction
ENSG00000237441	Chromatin interaction
ENSG00000235863	Chromatin interaction
ENSG00000236104	Chromatin interaction
ENSG00000231500	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs16869178	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1705000	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17221716	1.00[ASN][1000 genomes]
rs1755039	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1755041	1.00[ASN][1000 genomes]
rs1755054	1.00[ASN][1000 genomes]
rs1794686	1.00[ASN][1000 genomes]
rs1794688	1.00[ASN][1000 genomes]
rs2395451	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs35433260	1.00[ASN][1000 genomes]
rs472990	1.00[ASN][1000 genomes]
rs480568	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs485623	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs535584	1.00[ASN][1000 genomes]
rs542056	1.00[ASN][1000 genomes]
rs542725	1.00[ASN][1000 genomes]
rs549719	1.00[ASN][1000 genomes]
rs55700437	1.00[ASN][1000 genomes]
rs557559	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs560218	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs561276	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs572824	1.00[ASN][1000 genomes]
rs59473078	1.00[ASN][1000 genomes]
rs59572422	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59841013	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61687548	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6900438	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6900824	1.00[ASN][1000 genomes]
rs6906691	1.00[ASN][1000 genomes]
rs6906810	1.00[ASN][1000 genomes]
rs6907034	1.00[ASN][1000 genomes]
rs6907978	1.00[ASN][1000 genomes]
rs6928341	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6934454	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs71536195	1.00[ASN][1000 genomes]
rs73741556	1.00[ASN][1000 genomes]
rs73741557	1.00[ASN][1000 genomes]
rs7742747	1.00[ASN][1000 genomes]
rs7743118	1.00[ASN][1000 genomes]
rs7752930	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7757391	1.00[ASN][1000 genomes]
rs7757722	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7759154	1.00[ASN][1000 genomes]
rs7762843	1.00[JPT][hapmap]
rs806604	1.00[ASN][1000 genomes]
rs9689326	1.00[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	nsv830635	chr6:33238005-33413787	Active TSS Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Transcr. at gene 5' and 3' Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	129 gene(s)	inside rSNPs	diseases
2	nsv830637	chr6:33329365-33510704	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
3	nsv885769	chr6:33377522-33412197	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA	48 gene(s)	inside rSNPs	diseases
4	nsv602832	chr6:33382241-33520221	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
5	nsv932196	chr6:33383131-33400706	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	36 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:33386000-33392600	Weak transcription	Gastric	stomach
2	chr6:33386800-33392600	Weak transcription	Left Ventricle	heart
3	chr6:33387000-33392200	Weak transcription	Hela-S3	cervix
4	chr6:33387400-33392200	Weak transcription	Placenta	Placenta
5	chr6:33387400-33392200	Weak transcription	Spleen	Spleen
6	chr6:33387600-33392400	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr6:33387800-33391800	Weak transcription	Lung	lung
8	chr6:33387800-33392000	Weak transcription	Small Intestine	intestine
9	chr6:33387800-33392200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr6:33387800-33392200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
11	chr6:33387800-33392200	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr6:33387800-33392200	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr6:33387800-33392400	Weak transcription	Primary B cells from cord blood	blood
14	chr6:33387800-33392400	Weak transcription	Duodenum Mucosa	Duodenum
15	chr6:33387800-33392400	Weak transcription	Placenta Amnion	Placenta Amnion
16	chr6:33387800-33392600	Weak transcription	A549	lung
17	chr6:33388000-33392400	Weak transcription	Primary B cells from peripheral blood	blood
18	chr6:33388000-33392400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr6:33388000-33392400	Weak transcription	Adipose Nuclei	Adipose
20	chr6:33388000-33392400	Weak transcription	Brain Substantia Nigra	brain
21	chr6:33388000-33392400	Weak transcription	HMEC	breast
22	chr6:33388000-33392600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr6:33388000-33392600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr6:33388000-33392600	Weak transcription	HSMM	muscle
25	chr6:33388200-33392200	Weak transcription	Psoas Muscle	Psoas
26	chr6:33388400-33392000	Weak transcription	Colonic Mucosa	Colon
27	chr6:33388400-33392200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
28	chr6:33388400-33392200	Weak transcription	Aorta	Aorta
29	chr6:33388400-33392200	Weak transcription	Right Ventricle	heart
30	chr6:33388400-33392600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
31	chr6:33388400-33392600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
32	chr6:33388600-33391200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr6:33388600-33391200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr6:33388600-33391200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr6:33388600-33391400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
36	chr6:33388600-33391800	Weak transcription	Colon Smooth Muscle	Colon
37	chr6:33388600-33391800	Weak transcription	Rectal Smooth Muscle	rectum
38	chr6:33388600-33391800	Weak transcription	Right Atrium	heart
39	chr6:33388600-33392000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
40	chr6:33388600-33392200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
41	chr6:33388600-33392200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
42	chr6:33388600-33392400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr6:33388600-33392400	Weak transcription	Primary hematopoietic stem cells	blood
44	chr6:33388600-33392400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
45	chr6:33388600-33392400	Weak transcription	Fetal Kidney	kidney
46	chr6:33388600-33392400	Weak transcription	Pancreatic Islets	Pancreatic Islet
47	chr6:33388600-33392400	Weak transcription	NH-A	brain
48	chr6:33388600-33392600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
49	chr6:33388600-33392600	Weak transcription	Fetal Muscle Trunk	muscle
50	chr6:33388600-33392600	Weak transcription	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links