Variant report

Variant	rs1329707
Chromosome Location	chr6:142724439-142724440
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10484733	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11155241	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11155242	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11759653	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12189838	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12190271	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12197866	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12213892	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13198644	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1329705	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17071756	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1928528	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2294775	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs262117	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3817928	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4304190	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6570511	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6900087	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6900233	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6901807	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6903424	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6906468	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6912639	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6922607	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6925979	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73780219	1.00[ASN][1000 genomes]
rs73780221	1.00[ASN][1000 genomes]
rs7756434	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7757571	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7765770	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7776356	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9321870	0.82[EUR][1000 genomes]
rs9373347	0.90[EUR][1000 genomes]
rs9403386	0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949088	chr6:142561402-143128849	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv830825	chr6:142585242-142752575	Enhancers Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:142698600-142733200	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr6:142708000-142734800	Weak transcription	Esophagus	oesophagus
3	chr6:142710200-142733400	Weak transcription	HSMM	muscle
4	chr6:142711400-142725000	Strong transcription	HepG2	liver
5	chr6:142711800-142725200	Strong transcription	Liver	Liver
6	chr6:142712200-142735000	Weak transcription	Fetal Brain Male	brain
7	chr6:142714200-142733200	Weak transcription	HMEC	breast
8	chr6:142717600-142724600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr6:142717600-142725800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr6:142718000-142763200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr6:142719800-142735400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr6:142720400-142725000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr6:142720400-142733200	Weak transcription	NHEK	skin
14	chr6:142720600-142736800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr6:142721600-142749200	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr6:142721800-142725600	Weak transcription	Gastric	stomach
17	chr6:142722000-142728000	Weak transcription	Primary T cells from cord blood	blood
18	chr6:142722000-142743400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr6:142722200-142728800	Weak transcription	Muscle Satellite Cultured Cells	--
20	chr6:142722200-142731000	Weak transcription	NHLF	lung
21	chr6:142722200-142731600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr6:142722200-142734200	Weak transcription	Hela-S3	cervix
23	chr6:142722400-142725800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr6:142722400-142725800	Weak transcription	Fetal Lung	lung
25	chr6:142722400-142726000	Weak transcription	Stomach Mucosa	stomach
26	chr6:142722400-142728000	Weak transcription	Small Intestine	intestine
27	chr6:142722400-142728600	Weak transcription	HSMMtube	muscle
28	chr6:142722600-142725800	Weak transcription	Duodenum Mucosa	Duodenum
29	chr6:142723000-142725800	Weak transcription	Fetal Intestine Large	intestine
30	chr6:142723200-142724600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr6:142723200-142725000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr6:142723400-142724600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr6:142723400-142725800	Weak transcription	Primary hematopoietic stem cells	blood
34	chr6:142723600-142725200	Strong transcription	A549	lung
35	chr6:142723800-142725800	Weak transcription	Fetal Intestine Small	intestine
36	chr6:142723800-142725800	Strong transcription	HUVEC	blood vessel
37	chr6:142724000-142729400	Weak transcription	Placenta	Placenta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links