Variant report

Variant	rs6506896
Chromosome Location	chr18:28780446-28780447
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr18:28778678..28780623-chr18:28785152..28786878,2	MCF-7	breast:

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs1365296	0.90[EUR][1000 genomes]
rs1469300	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1469301	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1469302	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1469304	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2011596	0.89[EUR][1000 genomes]
rs2162275	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2912328	0.93[EUR][1000 genomes]
rs2919998	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2919999	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6506895	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3360998	chr18:28693111-28881812	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:28771000-28789000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr18:28771400-28783000	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr18:28775800-28783000	Weak transcription	K562	blood
4	chr18:28778000-28783200	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr18:28778800-28780800	Enhancers	Monocytes-CD14+_RO01746	blood
6	chr18:28779000-28783200	Weak transcription	Esophagus	oesophagus
7	chr18:28779200-28783000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr18:28779400-28783000	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr18:28779400-28783000	Weak transcription	Duodenum Mucosa	Duodenum
10	chr18:28779800-28782400	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr18:28779800-28783000	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr18:28779800-28783200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr18:28779800-28783200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr18:28779800-28783200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr18:28779800-28783200	Weak transcription	Placenta Amnion	Placenta Amnion
16	chr18:28779800-28786200	Weak transcription	Hela-S3	cervix
17	chr18:28780000-28781600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr18:28780000-28781800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr18:28780000-28781800	Weak transcription	Fetal Intestine Large	intestine
20	chr18:28780000-28782800	Weak transcription	Fetal Intestine Small	intestine
21	chr18:28780000-28783000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr18:28780000-28783000	Weak transcription	Stomach Mucosa	stomach
23	chr18:28780000-28783200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr18:28780000-28783200	Weak transcription	HMEC	breast
25	chr18:28780000-28783400	Weak transcription	A549	lung
26	chr18:28780000-28788400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
27	chr18:28780200-28782400	Weak transcription	Rectal Mucosa Donor 29	rectum
28	chr18:28780200-28783000	Weak transcription	NHEK	skin
29	chr18:28780200-28783200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr18:28780200-28786800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
31	chr18:28780400-28782000	Weak transcription	Primary monocytes fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links