Variant report

Variant	rs56231004
Chromosome Location	chr1:226084767-226084768
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:226076187..226078341-chr1:226083118..226085754,2	K562	blood:
2	chr1:226061743..226065093-chr1:226081244..226084907,3	MCF-7	breast:
3	chr1:226069006..226071944-chr1:226083311..226087212,4	MCF-7	breast:
4	chr1:226067224..226072522-chr1:226081850..226086228,5	K562	blood:
5	chr1:226073359..226078692-chr1:226082383..226086507,6	MCF-7	breast:
6	chr1:226064389..226066777-chr1:226084664..226086775,2	MCF-7	breast:
7	chr1:226082392..226086570-chr1:226107502..226111171,5	MCF-7	breast:
8	chr1:226080997..226083226-chr1:226084406..226086533,2	K562	blood:
9	chr1:226068047..226071599-chr1:226082710..226085024,3	K562	blood:
10	chr1:226084737..226087614-chr1:226108761..226113097,5	K562	blood:
11	chr1:226084282..226085817-chr1:226093529..226096512,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000196187	Chromatin interaction
ENSG00000143811	Chromatin interaction
ENSG00000243709	Chromatin interaction

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10047091	1.00[EUR][1000 genomes]
rs12061043	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12071072	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12071104	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12074209	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12074247	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12075664	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2236143	0.97[EUR][1000 genomes]
rs2271544	0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2292556	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2292559	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2292560	0.87[ASN][1000 genomes]
rs2292561	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2292568	0.87[EUR][1000 genomes]
rs28384446	0.92[EUR][1000 genomes]
rs28384447	0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28384448	0.95[EUR][1000 genomes]
rs28384449	0.95[EUR][1000 genomes]
rs35273824	0.83[AFR][1000 genomes]
rs35684337	0.83[AFR][1000 genomes]
rs360084	0.87[ASN][1000 genomes]
rs360087	0.87[ASN][1000 genomes]
rs360089	0.87[ASN][1000 genomes]
rs3738050	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3738051	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3753663	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3753666	0.92[EUR][1000 genomes]
rs3753668	1.00[EUR][1000 genomes]
rs3753670	1.00[EUR][1000 genomes]
rs3766935	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3766936	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3766937	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3766940	0.95[EUR][1000 genomes]
rs3766941	1.00[EUR][1000 genomes]
rs3806257	1.00[EUR][1000 genomes]
rs3806258	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs41310561	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4149227	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4149228	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4149230	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs45467394	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56301120	0.86[ASN][1000 genomes]
rs56325807	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs57095220	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs57932384	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs59728172	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs60847271	0.95[EUR][1000 genomes]
rs60943392	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61033712	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61227102	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs61295362	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6664740	1.00[EUR][1000 genomes]
rs74150536	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7514448	1.00[EUR][1000 genomes]
rs7516538	1.00[EUR][1000 genomes]
rs805179	0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1795046	chr1:225874059-226091150	Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	esv1834932	chr1:225874059-226091150	Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	esv1834948	chr1:225874059-226214882	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers 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 miRNA target site	60 gene(s)	inside rSNPs	diseases
4	nsv524126	chr1:225973777-226210653	Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Strong transcription Enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
5	nsv873231	chr1:226019653-226134471	Enhancers Transcr. at gene 5' and 3' Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
6	esv2762223	chr1:226025175-226201716	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
7	nsv520628	chr1:226026406-226093362	Enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
8	esv3335650	chr1:226074720-226125458	Bivalent Enhancer Flanking Active TSS Active TSS Enhancers Genic enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
9	esv3369235	chr1:226075748-226127738	Genic enhancers Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
10	nsv468216	chr1:226078915-226135132	Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
11	nsv549267	chr1:226078915-226135132	Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:226077000-226085200	Weak transcription	Spleen	Spleen
2	chr1:226077000-226099000	Weak transcription	Right Atrium	heart
3	chr1:226078800-226084800	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr1:226078800-226086800	Weak transcription	Fetal Stomach	stomach
5	chr1:226079000-226084800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr1:226079200-226085000	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr1:226079200-226085800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr1:226079800-226084800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr1:226079800-226085000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr1:226082000-226085600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
11	chr1:226083400-226087000	Enhancers	Primary B cells from peripheral blood	blood
12	chr1:226083600-226087000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
13	chr1:226083800-226085200	Enhancers	Sigmoid Colon	Sigmoid Colon
14	chr1:226083800-226085600	Enhancers	Liver	Liver
15	chr1:226083800-226087600	Enhancers	Fetal Thymus	thymus
16	chr1:226084000-226085000	Enhancers	Fetal Brain Male	brain
17	chr1:226084000-226085000	Enhancers	Stomach Smooth Muscle	stomach
18	chr1:226084000-226085200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr1:226084000-226086000	Enhancers	Primary hematopoietic stem cells	blood
20	chr1:226084000-226086800	Weak transcription	Gastric	stomach
21	chr1:226084000-226087600	Enhancers	Thymus	Thymus
22	chr1:226084200-226084800	Enhancers	Brain Cingulate Gyrus	brain
23	chr1:226084200-226084800	Enhancers	Brain Substantia Nigra	brain
24	chr1:226084200-226085000	Flanking Active TSS	Primary T cells from cord blood	blood
25	chr1:226084200-226085000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
26	chr1:226084200-226085000	Enhancers	A549	lung
27	chr1:226084200-226085200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr1:226084200-226086000	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
29	chr1:226084200-226086600	Enhancers	Stomach Mucosa	stomach
30	chr1:226084200-226087800	Enhancers	K562	blood
31	chr1:226084400-226085000	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
32	chr1:226084400-226085200	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
33	chr1:226084400-226085400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
34	chr1:226084400-226085400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr1:226084400-226085400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr1:226084400-226085400	Enhancers	NHEK	skin
37	chr1:226084400-226085800	Enhancers	HMEC	breast
38	chr1:226084400-226086400	Enhancers	Dnd41	blood
39	chr1:226084400-226086600	Enhancers	iPS-20b Cell Line	embryonic stem cell
40	chr1:226084400-226087200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr1:226084400-226088800	Enhancers	ES-I3 Cell Line	embryonic stem cell
42	chr1:226084600-226084800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr1:226084600-226084800	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
44	chr1:226084600-226085000	Enhancers	Breast Myoepithelial Primary Cells	Breast
45	chr1:226084600-226085000	Flanking Active TSS	Primary B cells from cord blood	blood
46	chr1:226084600-226085000	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
47	chr1:226084600-226085000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
48	chr1:226084600-226085000	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
49	chr1:226084600-226085000	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
50	chr1:226084600-226085000	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood

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