Variant report

Variant	rs12525802
Chromosome Location	chr6:36445288-36445289
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:36089363..36091687-chr6:36443783..36446163,2	K562	blood:
2	chr6:36392379..36394477-chr6:36445111..36447901,2	K562	blood:
3	chr6:36443244..36450154-chr6:36560815..36564510,7	K562	blood:
4	chr6:36444756..36446407-chr6:36447308..36449402,2	K562	blood:
5	chr6:36437239..36439073-chr6:36444524..36446195,2	MCF-7	breast:
6	chr6:36407760..36411032-chr6:36443705..36447898,5	K562	blood:
7	chr6:36437672..36440235-chr6:36445190..36447212,2	K562	blood:

Variant related genes	Relation type
ENSG00000179165	Chromatin interaction
ENSG00000112081	Chromatin interaction
ENSG00000112078	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs16888605	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16888791	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1744653	0.81[ASN][1000 genomes]
rs2104219	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2239541	0.83[ASN][1000 genomes]
rs2267930	0.86[ASN][1000 genomes]
rs2273882	0.88[ASN][1000 genomes]
rs2395653	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3819759	0.83[ASN][1000 genomes]
rs41272166	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4236051	0.86[ASN][1000 genomes]
rs4711451	0.83[ASN][1000 genomes]
rs4713975	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4713976	0.83[ASN][1000 genomes]
rs4713977	0.83[ASN][1000 genomes]
rs4713978	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4713983	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs57145488	0.83[EUR][1000 genomes]
rs57219009	0.83[EUR][1000 genomes]
rs57634930	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6457930	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7741260	0.81[ASN][1000 genomes]
rs7762779	0.83[EUR][1000 genomes]
rs7762785	0.83[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	nsv885806	chr6:36349890-36621178	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	103 gene(s)	inside rSNPs	diseases
2	nsv350047	chr6:36443236-36445871	Weak transcription Genic enhancers Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36411600-36476400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr6:36412200-36449200	Weak transcription	Esophagus	oesophagus
3	chr6:36412600-36449000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr6:36412800-36447000	Weak transcription	Brain Cingulate Gyrus	brain
5	chr6:36412800-36448600	Weak transcription	HMEC	breast
6	chr6:36419000-36449200	Weak transcription	Pancreas	Pancrea
7	chr6:36423000-36449400	Weak transcription	Gastric	stomach
8	chr6:36423400-36449600	Weak transcription	Stomach Mucosa	stomach
9	chr6:36427600-36449200	Weak transcription	Rectal Smooth Muscle	rectum
10	chr6:36428600-36445800	Weak transcription	Aorta	Aorta
11	chr6:36428800-36456600	Weak transcription	Right Atrium	heart
12	chr6:36429800-36449200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr6:36430000-36446000	Weak transcription	HUVEC	blood vessel
14	chr6:36430800-36488800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr6:36431200-36453600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr6:36431600-36447600	Weak transcription	Brain Angular Gyrus	brain
17	chr6:36431600-36449000	Weak transcription	Small Intestine	intestine
18	chr6:36431600-36449200	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr6:36431800-36449000	Weak transcription	A549	lung
20	chr6:36432000-36446800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr6:36432400-36449000	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr6:36432400-36449200	Weak transcription	NHDF-Ad	bronchial
23	chr6:36433800-36449200	Weak transcription	NHLF	lung
24	chr6:36436400-36448800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
25	chr6:36436800-36452400	Weak transcription	Fetal Brain Male	brain
26	chr6:36437000-36450400	Strong transcription	Dnd41	blood
27	chr6:36437200-36449400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
28	chr6:36437200-36455600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr6:36437200-36461400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
30	chr6:36437400-36446200	Weak transcription	Fetal Kidney	kidney
31	chr6:36437800-36450400	Strong transcription	HUES64 Cell Line	embryonic stem cell
32	chr6:36437800-36450600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr6:36437800-36455400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr6:36437800-36468000	Strong transcription	Fetal Muscle Leg	muscle
35	chr6:36437800-36477600	Strong transcription	Fetal Thymus	thymus
36	chr6:36438000-36449200	Weak transcription	Pancreatic Islets	Pancreatic Islet
37	chr6:36438000-36455200	Strong transcription	Osteobl	bone
38	chr6:36438000-36461000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr6:36438800-36446400	Weak transcription	Lung	lung
40	chr6:36439600-36446000	Weak transcription	Fetal Brain Female	brain
41	chr6:36439600-36446600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr6:36439600-36447200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
43	chr6:36439600-36448000	Weak transcription	Ovary	ovary
44	chr6:36439600-36448400	Weak transcription	Brain Hippocampus Middle	brain
45	chr6:36439600-36449200	Weak transcription	Placenta Amnion	Placenta Amnion
46	chr6:36439800-36449000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
47	chr6:36440000-36446000	Weak transcription	Right Ventricle	heart
48	chr6:36440000-36447000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
49	chr6:36440000-36447000	Weak transcription	Sigmoid Colon	Sigmoid Colon
50	chr6:36440000-36447600	Weak transcription	Skeletal Muscle Male	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links