Variant report

Variant	rs670787
Chromosome Location	chr1:155650386-155650387
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr1:155650385-155650508	GM12878	blood:	n/a	n/a
2	POLR2A	chr1:155650010-155650668	GM12878	blood:	n/a	n/a
3	POLR2A	chr1:155650074-155650727	GM12878	blood:	n/a	n/a
4	POLR2A	chr1:155650261-155650546	Hela-S3	cervix:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr1:155644925..155647693-chr1:155648033..155650535,4	K562	blood:
2	chr1:155649685..155651482-chr1:155656249..155657899,2	MCF-7	breast:
3	chr1:155646937..155653370-chr1:155653884..155660272,11	K562	blood:
4	chr1:155650232..155654143-chr1:155656732..155660370,8	MCF-7	breast:

Variant related genes	Relation type
YY1AP1	TF binding region
ENSG00000163374	Chromatin interaction
ENSG00000132676	Chromatin interaction

Extended variants
information (count: 92 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs10796951	0.95[AFR][1000 genomes]
rs10796952	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11802649	0.81[AMR][1000 genomes]
rs12136836	0.92[AFR][1000 genomes]
rs1625821	0.89[AMR][1000 genomes]
rs1627630	0.89[AMR][1000 genomes]
rs168343	0.89[AMR][1000 genomes]
rs171168	0.89[AMR][1000 genomes]
rs1749412	0.89[AMR][1000 genomes]
rs1749413	0.89[AMR][1000 genomes]
rs1749414	0.89[AMR][1000 genomes]
rs1749420	0.89[AMR][1000 genomes]
rs1749422	0.89[AMR][1000 genomes]
rs1756242	0.89[AMR][1000 genomes]
rs182979	0.81[AMR][1000 genomes]
rs1886618	0.89[AMR][1000 genomes]
rs2136920	0.89[AMR][1000 genomes]
rs2175389	0.89[AMR][1000 genomes]
rs2363017	0.89[AMR][1000 genomes]
rs2485472	0.89[AMR][1000 genomes]
rs2666828	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2686264	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2885676	0.89[AMR][1000 genomes]
rs348184	0.89[AMR][1000 genomes]
rs348188	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs348189	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs348190	0.81[AMR][1000 genomes]
rs348191	0.89[AMR][1000 genomes]
rs348194	0.81[AMR][1000 genomes]
rs348197	0.89[AMR][1000 genomes]
rs348199	0.89[AMR][1000 genomes]
rs348200	0.89[AMR][1000 genomes]
rs348207	0.89[AMR][1000 genomes]
rs348208	0.89[AMR][1000 genomes]
rs348209	0.89[AMR][1000 genomes]
rs35264557	1.00[AMR][1000 genomes]
rs4581273	0.89[AMR][1000 genomes]
rs4601579	0.81[AFR][1000 genomes]
rs4638121	0.89[AFR][1000 genomes]
rs485353	0.83[AFR][1000 genomes]
rs492669	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4971057	0.92[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs4971058	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs512551	0.89[AMR][1000 genomes]
rs540380	0.89[AMR][1000 genomes]
rs568672	0.89[AMR][1000 genomes]
rs606755	0.89[AMR][1000 genomes]
rs607036	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs617232	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6427281	0.89[AFR][1000 genomes]
rs6427282	0.92[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs6688399	0.89[AMR][1000 genomes]
rs683121	0.81[AMR][1000 genomes]
rs708607	0.89[AMR][1000 genomes]
rs708609	0.89[AMR][1000 genomes]
rs7522259	0.95[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs7540642	0.87[AFR][1000 genomes]
rs7543447	0.81[AFR][1000 genomes]
rs8179457	0.89[AMR][1000 genomes]
rs822013	0.89[AMR][1000 genomes]
rs822014	0.89[AMR][1000 genomes]
rs822017	0.89[AMR][1000 genomes]
rs822021	0.89[AMR][1000 genomes]
rs822023	0.89[AMR][1000 genomes]
rs822024	0.89[AMR][1000 genomes]
rs822027	0.89[AMR][1000 genomes]
rs822479	0.89[AMR][1000 genomes]
rs822481	0.89[AMR][1000 genomes]
rs822483	0.89[AMR][1000 genomes]
rs822485	0.89[AMR][1000 genomes]
rs822492	0.89[AMR][1000 genomes]
rs822498	0.89[AMR][1000 genomes]
rs822522	0.89[AMR][1000 genomes]
rs866603	0.89[AMR][1000 genomes]
rs9426928	0.91[AFR][1000 genomes]
rs9427219	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9427221	0.81[AMR][1000 genomes]
rs9427222	0.89[AMR][1000 genomes]
rs9427227	0.89[AMR][1000 genomes]
rs9427229	0.89[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529709	chr1:155154933-155757219	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	450 gene(s)	inside rSNPs	diseases
2	esv33869	chr1:155223283-155917961	Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	187 gene(s)	inside rSNPs	diseases
3	esv3431739	chr1:155514331-155664183	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
4	esv3388968	chr1:155532335-155658278	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
5	nsv1002390	chr1:155553423-155706930	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
6	nsv428246	chr1:155558197-155785831	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
7	nsv436522	chr1:155559513-155674249	Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
8	esv3360339	chr1:155562157-155683127	Active TSS Flanking Active TSS Genic enhancers Enhancers Strong transcription ZNF genes & repeats Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
9	nsv547965	chr1:155563152-155688600	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
10	esv3381327	chr1:155582853-155718436	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
11	esv3436971	chr1:155618172-155733386	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
12	esv3338099	chr1:155618190-155733359	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	32 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	chr1:155627000-155657600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr1:155627200-155651600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr1:155627200-155654000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr1:155627600-155650600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr1:155627600-155653600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr1:155627800-155650600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr1:155628000-155650400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr1:155628000-155650400	Strong transcription	Duodenum Smooth Muscle	Duodenum
9	chr1:155628000-155650400	Strong transcription	Stomach Smooth Muscle	stomach
10	chr1:155628000-155650600	Strong transcription	HUES6 Cell Line	embryonic stem cell
11	chr1:155628000-155650600	Strong transcription	Primary B cells from peripheral blood	blood
12	chr1:155628000-155650600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
13	chr1:155628000-155650600	Strong transcription	Sigmoid Colon	Sigmoid Colon
14	chr1:155628000-155650800	Strong transcription	Primary T cells from cord blood	blood
15	chr1:155628000-155650800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr1:155628000-155650800	Strong transcription	Placenta	Placenta
17	chr1:155628000-155651600	Strong transcription	Adipose Nuclei	Adipose
18	chr1:155628000-155652000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
19	chr1:155628000-155652000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr1:155628000-155653800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr1:155628000-155654600	Strong transcription	Fetal Thymus	thymus
22	chr1:155628200-155650400	Strong transcription	HUES64 Cell Line	embryonic stem cell
23	chr1:155628200-155650400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
24	chr1:155628200-155650400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr1:155628200-155650600	Strong transcription	Primary T helper naive cells from peripheral blood	blood
26	chr1:155628200-155650600	Strong transcription	Brain Inferior Temporal Lobe	brain
27	chr1:155628200-155650800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
28	chr1:155628200-155650800	Strong transcription	Primary T helper cells fromperipheralblood	blood
29	chr1:155628200-155650800	Strong transcription	Duodenum Mucosa	Duodenum
30	chr1:155628200-155651000	Strong transcription	Primary neutrophils fromperipheralblood	blood
31	chr1:155628200-155651000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr1:155628200-155651200	Strong transcription	Primary T helper cells PMA-I stimulated	--
33	chr1:155628200-155651200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
34	chr1:155628200-155653200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
35	chr1:155628400-155650400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
36	chr1:155628400-155650600	Strong transcription	Rectal Mucosa Donor 29	rectum
37	chr1:155628400-155650600	Strong transcription	Skeletal Muscle Female	skeletal muscle
38	chr1:155628400-155650800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
39	chr1:155628400-155653200	Strong transcription	Primary T cells fromperipheralblood	blood
40	chr1:155628600-155650400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
41	chr1:155628600-155650800	Strong transcription	Rectal Mucosa Donor 31	rectum
42	chr1:155628600-155651400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
43	chr1:155629400-155650400	Strong transcription	Fetal Lung	lung
44	chr1:155632000-155653200	Weak transcription	Right Atrium	heart
45	chr1:155632600-155651600	Strong transcription	HepG2	liver
46	chr1:155632800-155656200	Weak transcription	Stomach Mucosa	stomach
47	chr1:155634200-155650600	Strong transcription	Rectal Smooth Muscle	rectum
48	chr1:155634600-155657800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
49	chr1:155635200-155650400	Strong transcription	Fetal Brain Female	brain
50	chr1:155635400-155651400	Strong transcription	Primary B cells from cord blood	blood

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