Variant report

Variant	rs17080004
Chromosome Location	chr6:149248445-149248446
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	chr6:149190451..149193152-chr6:149247547..149250037,2	MCF-7	breast:

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs1038348	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs12175861	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs17080185	0.86[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs17080323	1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs1964571	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs3734374	0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6917705	0.97[ASN][1000 genomes]
rs6941568	1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9373582	1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9377180	0.97[ASN][1000 genomes]
rs9390635	1.00[ASN][1000 genomes]
rs9390636	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9390637	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9390638	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9390641	1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9390642	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9390643	0.85[JPT][hapmap];0.89[ASN][1000 genomes]
rs9399676	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9399677	1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9404006	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9404008	1.00[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	nsv1032690	chr6:149206106-149398712	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149211600-149255400	Weak transcription	Stomach Smooth Muscle	stomach
2	chr6:149226600-149252800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr6:149226600-149255600	Weak transcription	Ovary	ovary
4	chr6:149235400-149253000	Weak transcription	Primary B cells from peripheral blood	blood
5	chr6:149238400-149252600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr6:149240600-149254600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr6:149240600-149256400	Weak transcription	Aorta	Aorta
8	chr6:149243600-149262600	Weak transcription	Primary B cells from cord blood	blood
9	chr6:149246000-149255600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr6:149246000-149262600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr6:149246800-149262400	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr6:149247200-149251800	Weak transcription	Fetal Lung	lung
13	chr6:149247200-149258800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr6:149247200-149259000	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr6:149247800-149254600	Weak transcription	Psoas Muscle	Psoas
16	chr6:149247800-149268800	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr6:149248000-149254600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr6:149248000-149254600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr6:149248200-149250000	Enhancers	Fetal Brain Male	brain
20	chr6:149248400-149255400	Weak transcription	Fetal Heart	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links