Variant report

Variant	rs1737039
Chromosome Location	chr6:29736608-29736609
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:29725785..29727435-chr6:29736523..29738044,2	MCF-7	breast:

Extended variants
information (count: 124 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:106)

rs_ID	r²[population]
rs1059174	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1610600	0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1610603	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1610604	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1610605	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1610607	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1610613	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1610623	0.87[EUR][1000 genomes]
rs1610626	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1610627	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1610630	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1610632	0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1610727	0.82[EUR][1000 genomes]
rs1610728	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1610737	0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1610738	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1610740	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1611278	0.87[EUR][1000 genomes]
rs1611279	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1611292	0.86[EUR][1000 genomes]
rs1611293	0.84[EUR][1000 genomes]
rs1611294	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1611297	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1611352	0.80[ASN][1000 genomes]
rs1625607	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1625636	0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1626636	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1632447	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1632956	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1632958	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1632959	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1633012	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1633025	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1633026	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1633036	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1633038	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1633042	0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1633043	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1633045	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1633046	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1633048	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1633049	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1633050	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1633051	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1633052	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1633055	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1633056	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1633057	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1633058	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1633060	0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1633061	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1633062	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1633064	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1633069	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1633070	0.83[EUR][1000 genomes]
rs1633071	0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1633074	0.81[EUR][1000 genomes]
rs1633076	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1633091	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1736910	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1736911	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1736914	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1736916	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1736921	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1736995	0.88[EUR][1000 genomes]
rs1737008	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1737022	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1737058	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1737060	0.85[EUR][1000 genomes]
rs1737065	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1737066	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1737067	0.86[EUR][1000 genomes]
rs1737068	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1737070	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1737071	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1737073	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1737074	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1737075	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1737079	0.87[EUR][1000 genomes]
rs1737081	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1737084	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1737087	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2248693	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2735050	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3117297	0.86[ASN][1000 genomes]
rs3117303	0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3129081	0.86[ASN][1000 genomes]
rs3129184	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3130252	0.86[ASN][1000 genomes]
rs3131858	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3131862	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3135050	0.86[ASN][1000 genomes]
rs6933762	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs733840	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs733841	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs909717	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs909723	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs909724	0.84[EUR][1000 genomes]
rs909725	0.87[EUR][1000 genomes]
rs909726	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs909727	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs909732	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs909735	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9258243	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs932338	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs932341	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv20940	chr6:29653954-29923410	Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
2	nsv428475	chr6:29659525-29763392	Strong transcription Weak transcription Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv428139	chr6:29659525-29892317	Bivalent Enhancer Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases
4	nsv427749	chr6:29659525-29975144	Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
5	nsv508397	chr6:29663132-29761448	Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Transcr. at gene 5' and 3' Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
6	esv1794141	chr6:29670915-29765814	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
7	nsv10809	chr6:29692573-29794119	Flanking Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
8	nsv883532	chr6:29703262-29814963	Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
9	esv3441842	chr6:29715749-29942950	Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers Bivalent Enhancer Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
10	nsv883535	chr6:29725321-29741338	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
11	esv11180	chr6:29729381-29800066	Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
12	esv3422641	chr6:29732573-29737571	Weak transcription Enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
13	esv3332677	chr6:29733187-29961463	Flanking Active TSS Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
14	esv3423001	chr6:29733216-29878601	Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
15	esv3475027	chr6:29733297-29922699	Bivalent Enhancer Weak transcription Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
16	esv3475028	chr6:29733297-29922699	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
17	esv3420260	chr6:29734457-29835593	Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
18	esv3330285	chr6:29736281-29881328	Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1737039	HCG4P6	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:29728600-29737200	Weak transcription	Lung	lung
2	chr6:29731400-29739000	Weak transcription	Spleen	Spleen
3	chr6:29731600-29738800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr6:29733600-29755800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr6:29736600-29738200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr6:29736600-29739000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links