Variant report

Variant	rs9496541
Chromosome Location	chr6:143568487-143568488
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	chr6:143563003..143565038-chr6:143566432..143569083,2	MCF-7	breast:

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10484581	0.93[ASN][1000 genomes]
rs10484582	0.93[ASN][1000 genomes]
rs10484583	0.93[ASN][1000 genomes]
rs12055523	0.96[ASN][1000 genomes]
rs12055848	0.93[ASN][1000 genomes]
rs12176429	0.93[ASN][1000 genomes]
rs17072338	0.96[ASN][1000 genomes]
rs17072347	0.96[ASN][1000 genomes]
rs17072349	0.96[ASN][1000 genomes]
rs17072381	0.93[ASN][1000 genomes]
rs17072390	0.93[ASN][1000 genomes]
rs17072404	0.85[ASN][1000 genomes]
rs17072408	0.85[ASN][1000 genomes]
rs17072410	0.85[ASN][1000 genomes]
rs4458714	0.85[ASN][1000 genomes]
rs4895604	0.96[ASN][1000 genomes]
rs4896630	0.93[ASN][1000 genomes]
rs4896631	0.93[ASN][1000 genomes]
rs6570553	0.94[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs6932032	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7765576	0.85[ASN][1000 genomes]
rs7769247	0.89[ASN][1000 genomes]
rs9321895	0.96[ASN][1000 genomes]
rs9373382	0.96[ASN][1000 genomes]
rs9373383	0.85[ASN][1000 genomes]
rs9376734	0.93[ASN][1000 genomes]
rs9376735	0.85[ASN][1000 genomes]
rs9386029	0.96[ASN][1000 genomes]
rs9390071	0.96[ASN][1000 genomes]
rs9399431	0.93[ASN][1000 genomes]
rs9399432	0.85[ASN][1000 genomes]
rs9403469	0.96[ASN][1000 genomes]
rs9403470	0.93[ASN][1000 genomes]
rs9403471	0.93[ASN][1000 genomes]
rs9403472	0.93[ASN][1000 genomes]
rs9403473	0.93[ASN][1000 genomes]
rs9403474	0.85[ASN][1000 genomes]
rs9403476	0.85[ASN][1000 genomes]
rs9496550	1.00[EUR][1000 genomes]
rs9496551	1.00[EUR][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	nsv981344	chr6:143566840-143579617	Strong transcription Active TSS ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:143527400-143578800	Weak transcription	Brain Hippocampus Middle	brain
2	chr6:143545400-143588800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr6:143546000-143576200	Weak transcription	HepG2	liver
4	chr6:143546200-143571200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr6:143550200-143570400	Weak transcription	Fetal Intestine Large	intestine
6	chr6:143554200-143581400	Weak transcription	Psoas Muscle	Psoas
7	chr6:143557600-143574000	Weak transcription	Left Ventricle	heart
8	chr6:143557600-143575200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr6:143562600-143574200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr6:143562600-143579000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr6:143563400-143577200	Weak transcription	Fetal Muscle Leg	muscle
12	chr6:143563400-143579800	Weak transcription	Duodenum Smooth Muscle	Duodenum
13	chr6:143563600-143569600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr6:143563800-143569600	Weak transcription	Liver	Liver
15	chr6:143564200-143583000	Weak transcription	Pancreas	Pancrea
16	chr6:143565200-143569400	Weak transcription	NHEK	skin
17	chr6:143565200-143573800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr6:143565200-143579400	Weak transcription	Ovary	ovary
19	chr6:143565600-143570400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr6:143565600-143578200	Weak transcription	Esophagus	oesophagus
21	chr6:143566200-143570200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr6:143566200-143574600	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr6:143567600-143571200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr6:143568000-143569600	Enhancers	Aorta	Aorta
25	chr6:143568000-143578000	Weak transcription	K562	blood
26	chr6:143568200-143569200	Enhancers	Stomach Smooth Muscle	stomach
27	chr6:143568200-143571000	Weak transcription	Fetal Intestine Small	intestine
28	chr6:143568400-143569400	Enhancers	Fetal Heart	heart

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