Variant report

Variant	rs6687465
Chromosome Location	chr1:165845644-165845645
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:165844323..165845929-chr1:165851824..165854208,2	MCF-7	breast:
2	chr1:165796218..165799498-chr1:165844441..165848225,3	K562	blood:
3	chr1:165842995..165844503-chr1:165845607..165847939,2	MCF-7	breast:
4	chr1:165822075..165824045-chr1:165844384..165846604,2	K562	blood:
5	chr1:165843122..165847161-chr1:165847770..165853662,6	K562	blood:

Variant related genes	Relation type
ENSG00000143179	Chromatin interaction
ENSG00000143183	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10918302	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12060526	0.83[CEU][hapmap];0.89[JPT][hapmap];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12066877	0.83[EUR][1000 genomes]
rs12075898	0.81[EUR][1000 genomes]
rs12118019	0.85[ASN][1000 genomes]
rs12119028	0.85[ASN][1000 genomes]
rs12569109	0.85[ASN][1000 genomes]
rs1663841	0.85[ASN][1000 genomes]
rs16851987	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs16852447	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3790654	0.88[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs3790668	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs3790670	0.85[ASN][1000 genomes]
rs4656464	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4656465	0.93[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs4656467	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs4657489	0.87[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs475558	0.85[ASN][1000 genomes]
rs504436	0.85[ASN][1000 genomes]
rs530717	0.81[ASN][1000 genomes]
rs576213	0.85[ASN][1000 genomes]
rs6426943	0.86[ASN][1000 genomes]
rs6666086	0.81[JPT][hapmap]
rs6682285	0.88[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs72699986	0.84[EUR][1000 genomes]
rs7520107	0.94[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs7527146	0.84[EUR][1000 genomes]
rs7547020	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7549754	0.84[EUR][1000 genomes]
rs9787031	0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2756102	chr1:165652342-165877342	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
2	esv2755529	chr1:165813862-165858354	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
3	nsv437246	chr1:165822891-165860813	Genic enhancers Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:165828000-165847200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr1:165828000-165849200	Weak transcription	Fetal Muscle Trunk	muscle
3	chr1:165832400-165853400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr1:165832800-165852800	Weak transcription	Psoas Muscle	Psoas
5	chr1:165833000-165849000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr1:165833200-165851000	Weak transcription	Hela-S3	cervix
7	chr1:165835400-165846600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr1:165836200-165849200	Weak transcription	Osteobl	bone
9	chr1:165840800-165851400	Weak transcription	Right Ventricle	heart
10	chr1:165840800-165851800	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr1:165841000-165847800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr1:165841000-165849000	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr1:165841000-165849000	Weak transcription	HSMMtube	muscle
14	chr1:165841000-165853400	Weak transcription	Gastric	stomach
15	chr1:165842600-165845800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr1:165842800-165846400	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr1:165842800-165846400	Enhancers	Rectal Mucosa Donor 31	rectum
18	chr1:165843000-165846200	Enhancers	Small Intestine	intestine
19	chr1:165843200-165847000	Weak transcription	Primary monocytes fromperipheralblood	blood
20	chr1:165843200-165851800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr1:165843200-165852400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr1:165843400-165845800	Enhancers	Primary hematopoietic stem cells	blood
23	chr1:165843400-165846000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
24	chr1:165843400-165846200	Enhancers	Stomach Mucosa	stomach
25	chr1:165843400-165846600	Weak transcription	K562	blood
26	chr1:165843400-165847200	Weak transcription	Monocytes-CD14+_RO01746	blood
27	chr1:165843400-165852400	Weak transcription	NHLF	lung
28	chr1:165843600-165851200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr1:165843800-165846200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
30	chr1:165843800-165849800	Genic enhancers	Dnd41	blood
31	chr1:165844200-165846600	Weak transcription	Brain Germinal Matrix	brain
32	chr1:165844400-165845800	Enhancers	Sigmoid Colon	Sigmoid Colon
33	chr1:165844400-165846000	Enhancers	HepG2	liver
34	chr1:165844600-165846000	Weak transcription	HSMM	muscle
35	chr1:165844600-165846200	Enhancers	Liver	Liver
36	chr1:165844800-165846000	Weak transcription	H1 Cell Line	embryonic stem cell
37	chr1:165844800-165851200	Weak transcription	Left Ventricle	heart
38	chr1:165844800-165852400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
39	chr1:165844800-165852400	Weak transcription	Skeletal Muscle Male	skeletal muscle
40	chr1:165845000-165846400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr1:165845000-165848000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr1:165845000-165849400	Weak transcription	Brain Anterior Caudate	brain
43	chr1:165845200-165845800	Enhancers	A549	lung
44	chr1:165845200-165846600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
45	chr1:165845200-165847000	Weak transcription	Primary B cells from peripheral blood	blood
46	chr1:165845200-165848600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
47	chr1:165845200-165849600	Weak transcription	Pancreas	Pancrea
48	chr1:165845200-165860000	Weak transcription	Fetal Thymus	thymus
49	chr1:165845400-165845800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr1:165845400-165846000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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