Variant report

Variant	rs6676140
Chromosome Location	chr1:171515786-171515787
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10913119	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10913149	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10913157	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10913285	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10913292	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12564279	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12567152	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2038040	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2038041	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2038043	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2294291	0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs3204333	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs57562814	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs60014783	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6669168	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6681173	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6702038	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72717832	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72717839	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72717840	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72717853	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72717854	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7517178	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7521480	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7522026	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv14617	chr1:171016086-171726961	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	esv3512995	chr1:171329123-171994470	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
3	esv3512997	chr1:171329123-171994470	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
4	nsv465639	chr1:171459507-171545051	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv548190	chr1:171459507-171545051	Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:171475800-171524400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr1:171481000-171528000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr1:171481200-171518800	Strong transcription	HUES64 Cell Line	embryonic stem cell
4	chr1:171481200-171519200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr1:171481200-171519600	Strong transcription	Dnd41	blood
6	chr1:171481200-171520000	Strong transcription	Primary monocytes fromperipheralblood	blood
7	chr1:171481200-171522400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr1:171481400-171519200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr1:171481400-171519800	Strong transcription	Monocytes-CD14+_RO01746	blood
10	chr1:171481400-171520000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr1:171481400-171522800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
12	chr1:171481600-171519200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr1:171481600-171520600	Strong transcription	Primary T cells fromperipheralblood	blood
14	chr1:171481800-171520000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
15	chr1:171481800-171520600	Strong transcription	Placenta	Placenta
16	chr1:171482000-171519800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr1:171482000-171520000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
18	chr1:171482000-171520400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr1:171482000-171520400	Strong transcription	Rectal Mucosa Donor 31	rectum
20	chr1:171482000-171522000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr1:171482000-171523000	Strong transcription	Primary T helper cells fromperipheralblood	blood
22	chr1:171482000-171524400	Strong transcription	HUES6 Cell Line	embryonic stem cell
23	chr1:171482200-171518400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr1:171482200-171519200	Strong transcription	HUES48 Cell Line	embryonic stem cell
25	chr1:171482200-171520000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
26	chr1:171482200-171520000	Strong transcription	Rectal Mucosa Donor 29	rectum
27	chr1:171482200-171520400	Strong transcription	Duodenum Mucosa	Duodenum
28	chr1:171482200-171520600	Strong transcription	Primary T helper cells PMA-I stimulated	--
29	chr1:171482200-171520600	Strong transcription	Fetal Thymus	thymus
30	chr1:171482200-171541800	Strong transcription	Primary B cells from peripheral blood	blood
31	chr1:171482400-171520000	Strong transcription	Liver	Liver
32	chr1:171482400-171520400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
33	chr1:171482600-171520600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
34	chr1:171483200-171520400	Strong transcription	Primary T helper naive cells from peripheral blood	blood
35	chr1:171483200-171520600	Strong transcription	H1 Cell Line	embryonic stem cell
36	chr1:171483600-171520400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr1:171494800-171519800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr1:171495200-171524800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr1:171496000-171520000	Strong transcription	Adipose Nuclei	Adipose
40	chr1:171496400-171516000	Strong transcription	Osteobl	bone
41	chr1:171496400-171519800	Strong transcription	Primary B cells from cord blood	blood
42	chr1:171496600-171517800	Strong transcription	HUVEC	blood vessel
43	chr1:171496800-171520000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr1:171497200-171520600	Strong transcription	Duodenum Smooth Muscle	Duodenum
45	chr1:171497400-171519600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
46	chr1:171500600-171515800	Strong transcription	NHDF-Ad	bronchial
47	chr1:171501200-171525600	Weak transcription	Fetal Heart	heart
48	chr1:171502600-171520400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr1:171503400-171515800	Strong transcription	HepG2	liver
50	chr1:171503600-171518600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links