Variant report

Variant	rs34953706
Chromosome Location	chr3:46434319-46434320
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:46433060..46435170-chr3:46436766..46439385,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-LTF-1	chr3:46434316-46434543	ENSG00000223552.1

Extended variants
information (count: 116 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:110)

rs_ID	r²[population]
rs11574430	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11574436	0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11574442	0.90[ASN][1000 genomes]
rs11575062	1.00[ASN][1000 genomes]
rs13065351	0.86[ASN][1000 genomes]
rs13068145	0.86[ASN][1000 genomes]
rs13068271	0.86[ASN][1000 genomes]
rs13071469	0.86[ASN][1000 genomes]
rs13077302	0.86[ASN][1000 genomes]
rs13078564	0.86[ASN][1000 genomes]
rs13093063	0.86[ASN][1000 genomes]
rs13100243	0.86[ASN][1000 genomes]
rs17141079	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17141101	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17284138	0.86[ASN][1000 genomes]
rs17284187	0.86[ASN][1000 genomes]
rs17285143	0.85[ASN][1000 genomes]
rs17715106	1.00[ASN][1000 genomes]
rs17765882	1.00[ASN][1000 genomes]
rs17782551	0.95[ASN][1000 genomes]
rs17782618	0.95[ASN][1000 genomes]
rs17782636	0.95[ASN][1000 genomes]
rs1894387	1.00[ASN][1000 genomes]
rs1894388	0.95[ASN][1000 genomes]
rs2157055	0.85[ASN][1000 genomes]
rs2373245	0.85[ASN][1000 genomes]
rs2373250	0.85[ASN][1000 genomes]
rs2373251	0.85[ASN][1000 genomes]
rs2856762	1.00[ASN][1000 genomes]
rs28677778	0.86[ASN][1000 genomes]
rs3092957	1.00[ASN][1000 genomes]
rs3092958	1.00[ASN][1000 genomes]
rs3092959	1.00[ASN][1000 genomes]
rs3181038	1.00[ASN][1000 genomes]
rs3204850	0.90[ASN][1000 genomes]
rs34024447	1.00[ASN][1000 genomes]
rs34041956	1.00[ASN][1000 genomes]
rs34073838	0.86[ASN][1000 genomes]
rs34106161	1.00[ASN][1000 genomes]
rs34158148	1.00[ASN][1000 genomes]
rs34180919	0.95[ASN][1000 genomes]
rs34190223	1.00[ASN][1000 genomes]
rs34200951	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34203322	0.87[ASN][1000 genomes]
rs34245951	0.85[ASN][1000 genomes]
rs34265215	0.85[ASN][1000 genomes]
rs34351442	0.95[ASN][1000 genomes]
rs34363105	1.00[ASN][1000 genomes]
rs34448949	1.00[ASN][1000 genomes]
rs34455547	1.00[ASN][1000 genomes]
rs34473395	1.00[ASN][1000 genomes]
rs34578126	0.95[ASN][1000 genomes]
rs34671664	0.85[ASN][1000 genomes]
rs34709208	0.95[ASN][1000 genomes]
rs34883716	1.00[ASN][1000 genomes]
rs34988015	0.95[ASN][1000 genomes]
rs34997818	0.85[ASN][1000 genomes]
rs35117954	0.86[ASN][1000 genomes]
rs35118578	0.86[ASN][1000 genomes]
rs35148665	0.95[ASN][1000 genomes]
rs35203745	0.86[ASN][1000 genomes]
rs35218998	0.86[ASN][1000 genomes]
rs35260614	1.00[ASN][1000 genomes]
rs35367413	1.00[ASN][1000 genomes]
rs35373513	0.86[ASN][1000 genomes]
rs35386789	0.86[ASN][1000 genomes]
rs35413141	1.00[ASN][1000 genomes]
rs35438577	0.95[ASN][1000 genomes]
rs35479331	1.00[ASN][1000 genomes]
rs35511592	0.86[ASN][1000 genomes]
rs35513549	1.00[ASN][1000 genomes]
rs35516519	1.00[ASN][1000 genomes]
rs35568430	0.90[ASN][1000 genomes]
rs35577626	0.95[ASN][1000 genomes]
rs35601704	1.00[ASN][1000 genomes]
rs35646896	0.86[ASN][1000 genomes]
rs35821444	1.00[ASN][1000 genomes]
rs35878193	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35883833	0.85[ASN][1000 genomes]
rs35943069	1.00[ASN][1000 genomes]
rs36020695	0.85[ASN][1000 genomes]
rs36030692	0.85[ASN][1000 genomes]
rs36052732	1.00[ASN][1000 genomes]
rs36078103	0.86[ASN][1000 genomes]
rs3749461	1.00[ASN][1000 genomes]
rs3918354	1.00[ASN][1000 genomes]
rs3918362	1.00[ASN][1000 genomes]
rs3918365	0.95[ASN][1000 genomes]
rs3918368	0.83[ASN][1000 genomes]
rs4473594	0.86[ASN][1000 genomes]
rs6777875	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6793370	0.86[ASN][1000 genomes]
rs6806951	0.95[ASN][1000 genomes]
rs71327048	0.95[ASN][1000 genomes]
rs71327052	1.00[ASN][1000 genomes]
rs71327053	1.00[ASN][1000 genomes]
rs71327054	1.00[ASN][1000 genomes]
rs71327055	1.00[ASN][1000 genomes]
rs71327056	1.00[ASN][1000 genomes]
rs71327057	1.00[ASN][1000 genomes]
rs71327059	1.00[ASN][1000 genomes]
rs71327061	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71327062	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs71327063	0.85[ASN][1000 genomes]
rs71327064	0.82[EUR][1000 genomes]
rs71615445	1.00[ASN][1000 genomes]
rs7649905	0.86[ASN][1000 genomes]
rs9714000	0.82[ASN][1000 genomes]
rs9810242	0.86[ASN][1000 genomes]
rs9882616	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	esv3323840	chr3:46352348-46497196	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	esv3389382	chr3:46352798-46496696	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	esv2756988	chr3:46419634-46444794	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	esv2759146	chr3:46419634-46444794	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv10267	chr3:46423130-46440713	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46422200-46435200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr3:46422400-46438600	Weak transcription	Psoas Muscle	Psoas
3	chr3:46422600-46435200	Weak transcription	Right Atrium	heart
4	chr3:46425200-46435600	Weak transcription	Lung	lung
5	chr3:46425400-46441800	Weak transcription	Stomach Mucosa	stomach
6	chr3:46425800-46446600	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr3:46426600-46435200	Weak transcription	Spleen	Spleen
8	chr3:46426600-46435400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr3:46428000-46434400	Weak transcription	Adipose Nuclei	Adipose
10	chr3:46428000-46448400	Weak transcription	Primary T cells from cord blood	blood
11	chr3:46429600-46434600	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr3:46432400-46438200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr3:46432600-46435200	Weak transcription	Esophagus	oesophagus
14	chr3:46432600-46437400	Enhancers	Placenta	Placenta
15	chr3:46433400-46437000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr3:46433600-46436800	Enhancers	Dnd41	blood
17	chr3:46434000-46434400	Flanking Active TSS	Hela-S3	cervix
18	chr3:46434000-46436600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr3:46434200-46434400	Enhancers	iPS-20b Cell Line	embryonic stem cell
20	chr3:46434200-46434600	Weak transcription	HMEC	breast
21	chr3:46434200-46437800	Enhancers	Fetal Intestine Large	intestine

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