Variant report

Variant	rs6540831
Chromosome Location	chr1:214615236-214615237
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:214611152..214615489-chr1:214618364..214620847,4	MCF-7	breast:
2	chr1:214614481..214615989-chr1:214619724..214621377,2	MCF-7	breast:
3	chr1:214613502..214615367-chr4:18740993..18743992,2	MCF-7	breast:

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10746445	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10746446	1.00[CEU][hapmap]
rs11120321	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs11120334	0.95[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4130486	0.80[EUR][1000 genomes]
rs4233305	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4233307	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs4253891	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4301608	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4421564	0.81[EUR][1000 genomes]
rs4451529	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4465172	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4539105	0.87[CEU][hapmap]
rs4571940	0.86[CHB][hapmap]
rs4655343	0.81[EUR][1000 genomes]
rs6540830	0.87[CHB][hapmap]
rs6540836	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6540839	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs6540840	0.83[EUR][1000 genomes]
rs6665797	0.81[EUR][1000 genomes]
rs6682987	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7528679	0.81[EUR][1000 genomes]
rs7528775	0.81[EUR][1000 genomes]
rs7528800	0.81[EUR][1000 genomes]
rs7535598	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7537274	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs7555415	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:214594000-214618000	Weak transcription	Stomach Smooth Muscle	stomach
2	chr1:214601600-214625200	Weak transcription	Esophagus	oesophagus
3	chr1:214601600-214633000	Weak transcription	Gastric	stomach
4	chr1:214602800-214617600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr1:214604000-214617600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr1:214610400-214615800	Enhancers	HUVEC	blood vessel
7	chr1:214610400-214620600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr1:214610600-214617000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr1:214611200-214615400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr1:214611600-214615800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr1:214611600-214616200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
12	chr1:214611600-214616200	Enhancers	iPS-15b Cell Line	embryonic stem cell
13	chr1:214611600-214619200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr1:214611600-214620400	Enhancers	HUES64 Cell Line	embryonic stem cell
15	chr1:214611800-214618000	Weak transcription	Right Atrium	heart
16	chr1:214611800-214620400	Weak transcription	Fetal Muscle Trunk	muscle
17	chr1:214611800-214623200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr1:214612200-214616000	Enhancers	iPS-18 Cell Line	embryonic stem cell
19	chr1:214612800-214615400	Enhancers	H1 Cell Line	embryonic stem cell
20	chr1:214612800-214615400	Enhancers	Dnd41	blood
21	chr1:214612800-214616800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
22	chr1:214613000-214619800	Weak transcription	Fetal Brain Male	brain
23	chr1:214613000-214649400	Weak transcription	Lung	lung
24	chr1:214613200-214615600	Genic enhancers	Osteobl	bone
25	chr1:214613200-214616800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr1:214613200-214617600	Weak transcription	Fetal Stomach	stomach
27	chr1:214613200-214617800	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr1:214613200-214618400	Weak transcription	Left Ventricle	heart
29	chr1:214613200-214620600	Enhancers	ES-I3 Cell Line	embryonic stem cell
30	chr1:214613200-214620600	Enhancers	HUES6 Cell Line	embryonic stem cell
31	chr1:214613200-214628400	Weak transcription	Ovary	ovary
32	chr1:214613200-214633400	Weak transcription	Pancreas	Pancrea
33	chr1:214613400-214615400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr1:214613400-214616000	Enhancers	HMEC	breast
35	chr1:214613400-214616200	Enhancers	HUES48 Cell Line	embryonic stem cell
36	chr1:214613400-214616200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr1:214613400-214617000	Weak transcription	HSMMtube	muscle
38	chr1:214613400-214618000	Weak transcription	Adipose Nuclei	Adipose
39	chr1:214613400-214620200	Weak transcription	Brain Angular Gyrus	brain
40	chr1:214613600-214615600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr1:214613600-214616000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr1:214613600-214617000	Weak transcription	Fetal Muscle Leg	muscle
43	chr1:214613600-214618000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
44	chr1:214613600-214618200	Weak transcription	Colonic Mucosa	Colon
45	chr1:214613600-214618600	Weak transcription	Placenta	Placenta
46	chr1:214613600-214619000	Weak transcription	Cortex derived primary cultured neurospheres	brain
47	chr1:214613600-214619200	Weak transcription	Brain Anterior Caudate	brain
48	chr1:214613600-214619400	Weak transcription	Brain Substantia Nigra	brain
49	chr1:214613600-214620600	Weak transcription	Fetal Lung	lung
50	chr1:214613800-214617000	Enhancers	Breast Myoepithelial Primary Cells	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links