Variant report

Variant	rs2063675
Chromosome Location	chr6:4790195-4790196
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:4774936..4777199-chr6:4788444..4791160,3	MCF-7	breast:
2	chr6:4789235..4792155-chr6:4793481..4795463,2	MCF-7	breast:
3	chr6:4775712..4777921-chr6:4789550..4792037,2	K562	blood:
4	chr6:4778081..4781516-chr6:4787216..4791667,5	MCF-7	breast:
5	chr6:4785155..4787889-chr6:4789535..4792390,3	MCF-7	breast:
6	chr6:4788250..4792483-chr6:4794003..4797255,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000236336	Chromatin interaction
ENSG00000153046	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs11961156	1.00[ASN][1000 genomes]
rs11961513	1.00[ASN][1000 genomes]
rs11962926	1.00[ASN][1000 genomes]
rs11967830	1.00[ASN][1000 genomes]
rs179822	1.00[ASN][1000 genomes]
rs2009326	1.00[ASN][1000 genomes]
rs2063674	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2063676	1.00[ASN][1000 genomes]
rs233478	1.00[ASN][1000 genomes]
rs60624800	1.00[ASN][1000 genomes]
rs61747454	1.00[AMR][1000 genomes]
rs6938682	1.00[ASN][1000 genomes]
rs6939444	1.00[ASN][1000 genomes]
rs73360686	1.00[ASN][1000 genomes]
rs73362505	1.00[ASN][1000 genomes]
rs7739005	1.00[ASN][1000 genomes]
rs7742941	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	esv3366530	chr6:4471528-4865322	ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	esv3429586	chr6:4719363-4792438	Flanking Active TSS Bivalent Enhancer Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1023527	chr6:4729592-5387176	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	esv2422499	chr6:4745428-5073222	Enhancers Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
5	nsv1015888	chr6:4787784-4883663	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:94 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:4781400-4794000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr6:4781400-4794400	Weak transcription	NHLF	lung
3	chr6:4781600-4797800	Weak transcription	Hela-S3	cervix
4	chr6:4781800-4794200	Weak transcription	Brain Hippocampus Middle	brain
5	chr6:4782000-4790600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr6:4782000-4794400	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr6:4782000-4797800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr6:4782600-4791400	Weak transcription	Fetal Heart	heart
9	chr6:4782800-4790600	Weak transcription	Duodenum Mucosa	Duodenum
10	chr6:4783000-4791400	Weak transcription	Monocytes-CD14+_RO01746	blood
11	chr6:4785400-4794400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr6:4786000-4790800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
13	chr6:4786200-4792000	Enhancers	Primary T helper cells PMA-I stimulated	--
14	chr6:4786600-4793400	Weak transcription	A549	lung
15	chr6:4787000-4790200	Enhancers	Primary T cells fromperipheralblood	blood
16	chr6:4787200-4790800	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
17	chr6:4787200-4791400	Weak transcription	Thymus	Thymus
18	chr6:4787200-4794400	Weak transcription	Rectal Mucosa Donor 31	rectum
19	chr6:4787400-4791400	Weak transcription	HepG2	liver
20	chr6:4787400-4793200	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr6:4787400-4794000	Weak transcription	Colon Smooth Muscle	Colon
22	chr6:4787400-4808800	Weak transcription	Aorta	Aorta
23	chr6:4787600-4790400	Weak transcription	Fetal Kidney	kidney
24	chr6:4787600-4794400	Weak transcription	NHEK	skin
25	chr6:4788200-4790200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr6:4788200-4790400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
27	chr6:4788400-4790200	Enhancers	Fetal Muscle Leg	muscle
28	chr6:4788600-4790200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr6:4788800-4790200	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
30	chr6:4788800-4790200	Enhancers	Psoas Muscle	Psoas
31	chr6:4788800-4790400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr6:4788800-4790400	Flanking Active TSS	GM12878-XiMat	blood
33	chr6:4788800-4790800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
34	chr6:4788800-4791000	Enhancers	Primary B cells from peripheral blood	blood
35	chr6:4788800-4791000	Enhancers	Primary T killer memory cells from peripheral blood	blood
36	chr6:4788800-4791000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
37	chr6:4788800-4792000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
38	chr6:4789000-4790200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr6:4789000-4790200	Enhancers	Lung	lung
40	chr6:4789000-4790200	Enhancers	Pancreas	Pancrea
41	chr6:4789000-4790200	Enhancers	Placenta Amnion	Placenta Amnion
42	chr6:4789000-4790400	Enhancers	H1 Cell Line	embryonic stem cell
43	chr6:4789000-4790400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr6:4789000-4790400	Enhancers	Right Ventricle	heart
45	chr6:4789000-4790800	Enhancers	Primary T helper naive cells from peripheral blood	blood
46	chr6:4789000-4791000	Enhancers	Primary B cells from cord blood	blood
47	chr6:4789000-4791000	Enhancers	Primary T helper cells fromperipheralblood	blood
48	chr6:4789000-4791600	Enhancers	K562	blood
49	chr6:4789000-4791800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr6:4789000-4792000	Enhancers	Primary T helper naive cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links