Variant report

Variant	rs6454240
Chromosome Location	chr6:82498757-82498758
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:82493385..82494894-chr6:82496657..82499467,2	MCF-7	breast:
2	chr6:82496401..82499366-chr6:82532324..82534807,2	MCF-7	breast:
3	chr6:82497503..82499926-chr6:82508521..82510695,2	MCF-7	breast:
4	chr6:82459273..82465478-chr6:82493760..82501805,11	MCF-7	breast:
5	chr6:82497950..82501733-chr6:82505295..82508156,3	MCF-7	breast:
6	chr6:82498347..82500679-chr6:82501135..82504040,2	K562	blood:

Variant related genes	Relation type
ENSG00000112773	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs1034241	0.92[CEU][hapmap];0.85[GIH][hapmap];0.89[TSI][hapmap];0.97[EUR][1000 genomes]
rs11961442	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11969940	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13192697	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13212198	0.81[EUR][1000 genomes]
rs13214556	1.00[CEU][hapmap];0.92[CHB][hapmap];0.90[JPT][hapmap];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16893463	0.98[EUR][1000 genomes]
rs16893491	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.85[GIH][hapmap];0.90[JPT][hapmap];0.89[TSI][hapmap];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16893518	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16893523	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16893524	0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16893526	1.00[CEU][hapmap];0.85[GIH][hapmap];0.90[JPT][hapmap];0.83[TSI][hapmap];0.96[EUR][1000 genomes]
rs16893572	0.81[EUR][1000 genomes]
rs194618	0.91[CEU][hapmap];0.97[EUR][1000 genomes]
rs194620	0.97[EUR][1000 genomes]
rs1999630	0.88[EUR][1000 genomes]
rs34411814	0.88[EUR][1000 genomes]
rs34696161	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34723068	0.88[EUR][1000 genomes]
rs35039823	0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35392002	0.81[EUR][1000 genomes]
rs35419006	0.88[EUR][1000 genomes]
rs4476879	1.00[CEU][hapmap];0.90[JPT][hapmap];0.86[EUR][1000 genomes]
rs56021267	0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72899496	0.95[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	nsv830712	chr6:82491029-82654531	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:82494400-82499000	Enhancers	Stomach Mucosa	stomach
2	chr6:82494600-82499000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr6:82494800-82498800	Enhancers	Rectal Mucosa Donor 31	rectum
4	chr6:82496000-82500600	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr6:82496200-82500000	Enhancers	HepG2	liver
6	chr6:82496400-82499000	Enhancers	Muscle Satellite Cultured Cells	--
7	chr6:82497200-82499200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr6:82497400-82499000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr6:82497400-82500000	Enhancers	Fetal Intestine Large	intestine
10	chr6:82497600-82499200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr6:82497600-82499200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr6:82497600-82499600	Enhancers	Hela-S3	cervix
13	chr6:82497800-82499200	Enhancers	Pancreatic Islets	Pancreatic Islet
14	chr6:82497800-82503200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr6:82498000-82498800	Enhancers	A549	lung
16	chr6:82498000-82499800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr6:82498200-82499600	Enhancers	HUES48 Cell Line	embryonic stem cell
18	chr6:82498200-82500000	Enhancers	Fetal Intestine Small	intestine
19	chr6:82498400-82499000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr6:82498400-82499000	Enhancers	Pancreas	Pancrea
21	chr6:82498400-82499000	Enhancers	Sigmoid Colon	Sigmoid Colon
22	chr6:82498400-82499000	Enhancers	HUVEC	blood vessel
23	chr6:82498400-82499200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
24	chr6:82498400-82499200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
25	chr6:82498400-82499600	Enhancers	iPS-18 Cell Line	embryonic stem cell
26	chr6:82498400-82499800	Enhancers	H9 Cell Line	embryonic stem cell
27	chr6:82498400-82500600	Enhancers	ES-I3 Cell Line	embryonic stem cell
28	chr6:82498400-82501000	Enhancers	H1 Cell Line	embryonic stem cell
29	chr6:82498600-82498800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr6:82498600-82499000	Weak transcription	HUES6 Cell Line	embryonic stem cell
31	chr6:82498600-82500000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr6:82498600-82500800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links