Variant report

Variant	rs2227925
Chromosome Location	chr6:33545340-33545341
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:33391848..33395045-chr6:33544542..33547433,3	MCF-7	breast:
2	chr6:33538816..33540942-chr6:33543611..33545834,3	MCF-7	breast:
3	chr6:33543423..33546353-chr6:33546588..33548866,2	K562	blood:

Variant related genes	Relation type
ENSG00000030110	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10947415	0.86[AFR][1000 genomes]
rs10947418	1.00[AFR][1000 genomes]
rs10947426	0.86[AFR][1000 genomes]
rs11755257	1.00[AFR][1000 genomes]
rs11756772	0.83[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs11757379	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11757612	1.00[AFR][1000 genomes]
rs11758330	1.00[AFR][1000 genomes]
rs12153870	0.86[AFR][1000 genomes]
rs12195707	0.86[AFR][1000 genomes]
rs12200154	1.00[AFR][1000 genomes]
rs12205667	0.86[AFR][1000 genomes]
rs12211490	0.86[AFR][1000 genomes]
rs12211554	0.86[AFR][1000 genomes]
rs12211565	0.86[AFR][1000 genomes]
rs12214476	0.86[AFR][1000 genomes]
rs12214669	0.86[AFR][1000 genomes]
rs13195171	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs13200063	0.86[AFR][1000 genomes]
rs13206228	0.86[AFR][1000 genomes]
rs13219209	0.82[AMR][1000 genomes]
rs13220421	0.86[AFR][1000 genomes]
rs34339105	0.86[AFR][1000 genomes]
rs34460651	0.86[AFR][1000 genomes]
rs34517899	0.86[AFR][1000 genomes]
rs34869648	0.86[AFR][1000 genomes]
rs35088242	0.86[AFR][1000 genomes]
rs35274562	0.86[AFR][1000 genomes]
rs35445446	0.86[AFR][1000 genomes]
rs35721478	0.86[AFR][1000 genomes]
rs35797388	0.86[AFR][1000 genomes]
rs36097803	0.86[AFR][1000 genomes]
rs4559081	0.86[AFR][1000 genomes]
rs71565391	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71565393	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:33539200-33547200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr6:33539600-33546200	Weak transcription	NHDF-Ad	bronchial
3	chr6:33539600-33546400	Weak transcription	Fetal Brain Male	brain
4	chr6:33539600-33547000	Weak transcription	Fetal Kidney	kidney
5	chr6:33539800-33545400	Strong transcription	Fetal Intestine Small	intestine
6	chr6:33539800-33546400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr6:33539800-33547000	Weak transcription	Psoas Muscle	Psoas
8	chr6:33540000-33546400	Strong transcription	Fetal Stomach	stomach
9	chr6:33540200-33545800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr6:33540200-33545800	Strong transcription	Fetal Muscle Leg	muscle
11	chr6:33540200-33546000	Weak transcription	Fetal Heart	heart
12	chr6:33541000-33545400	Strong transcription	Brain Germinal Matrix	brain
13	chr6:33541200-33545800	Strong transcription	Fetal Brain Female	brain
14	chr6:33541200-33546000	Strong transcription	Osteobl	bone
15	chr6:33541200-33546400	Strong transcription	Cortex derived primary cultured neurospheres	brain
16	chr6:33541400-33545400	Strong transcription	Aorta	Aorta
17	chr6:33541600-33545400	Strong transcription	Placenta Amnion	Placenta Amnion
18	chr6:33541600-33545800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr6:33541600-33545800	Strong transcription	iPS-15b Cell Line	embryonic stem cell
20	chr6:33541600-33546000	Strong transcription	HUES48 Cell Line	embryonic stem cell
21	chr6:33541600-33546000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
22	chr6:33541600-33546000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr6:33541600-33546000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr6:33541600-33546000	Strong transcription	Fetal Intestine Large	intestine
25	chr6:33541600-33546200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr6:33541600-33546600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr6:33541800-33545400	Strong transcription	Brain Hippocampus Middle	brain
28	chr6:33541800-33545600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr6:33541800-33546000	Strong transcription	HUES6 Cell Line	embryonic stem cell
30	chr6:33541800-33546200	Strong transcription	NHLF	lung
31	chr6:33542000-33545800	Strong transcription	Colon Smooth Muscle	Colon
32	chr6:33542000-33546000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
33	chr6:33542000-33546000	Strong transcription	HepG2	liver
34	chr6:33542200-33546200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr6:33543200-33546400	Weak transcription	A549	lung
36	chr6:33543400-33546600	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr6:33543400-33547000	Weak transcription	Pancreatic Islets	Pancreatic Islet
38	chr6:33543400-33547200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr6:33543600-33546000	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr6:33543600-33546600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
41	chr6:33543600-33547200	Weak transcription	HSMMtube	muscle
42	chr6:33543800-33545800	Weak transcription	Right Ventricle	heart
43	chr6:33543800-33546600	Weak transcription	Fetal Lung	lung
44	chr6:33544000-33545800	Weak transcription	Small Intestine	intestine
45	chr6:33544000-33547200	Weak transcription	Ovary	ovary
46	chr6:33544400-33545400	Genic enhancers	Primary T helper naive cells from peripheral blood	blood
47	chr6:33544400-33545400	Genic enhancers	Primary T regulatory cells fromperipheralblood	blood
48	chr6:33544400-33545400	Enhancers	Stomach Mucosa	stomach
49	chr6:33544400-33546000	Enhancers	Primary neutrophils fromperipheralblood	blood
50	chr6:33544400-33546000	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood

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