Variant report

Variant	rs4774898
Chromosome Location	chr15:57199662-57199663
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:57197545..57200478-chr15:57209928..57211970,2	K562	blood:

Variant related genes	Relation type
ENSG00000137871	Chromatin interaction
ENSG00000140262	Chromatin interaction

Extended variants
information (count: 94 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:88)

rs_ID	r²[population]
rs11630195	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11631228	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11631541	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs11631732	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11632592	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11855648	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs11858471	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12437713	0.94[YRI][hapmap]
rs12898327	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs12899187	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12899915	0.92[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap]
rs12900589	0.84[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.95[YRI][hapmap]
rs12900874	0.90[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap]
rs12900986	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12901780	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12904070	0.81[EUR][1000 genomes]
rs12904784	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12905900	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12906873	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12906936	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12908670	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12914625	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12916237	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12916958	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12917247	0.87[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs1430823	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1628067	0.83[CHB][hapmap];0.86[JPT][hapmap]
rs16953316	1.00[YRI][hapmap]
rs16977155	1.00[YRI][hapmap]
rs16977181	1.00[YRI][hapmap]
rs16977199	1.00[YRI][hapmap]
rs16977201	1.00[YRI][hapmap]
rs16977217	1.00[YRI][hapmap]
rs16977218	1.00[YRI][hapmap]
rs16977235	0.95[YRI][hapmap]
rs16977242	0.95[YRI][hapmap]
rs17239040	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs17415738	0.94[YRI][hapmap]
rs17819700	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1820995	0.83[CHB][hapmap];0.91[JPT][hapmap]
rs2053472	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2111891	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2116065	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2116066	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs213149	0.83[CHB][hapmap];0.86[JPT][hapmap]
rs213164	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2165461	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2414490	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2464429	0.83[CHB][hapmap];0.91[JPT][hapmap]
rs2464430	0.83[CHB][hapmap];0.91[JPT][hapmap]
rs2470079	0.83[CHB][hapmap];0.91[JPT][hapmap]
rs2470082	0.91[JPT][hapmap]
rs2583108	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2585082	0.91[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2585087	0.83[CHB][hapmap];0.91[JPT][hapmap]
rs2585088	0.91[JPT][hapmap]
rs2585102	0.88[CHB][hapmap];0.91[JPT][hapmap]
rs2585112	0.83[CHB][hapmap];0.86[JPT][hapmap]
rs2703576	0.83[CHB][hapmap];0.86[JPT][hapmap]
rs2703580	0.91[JPT][hapmap]
rs2733170	0.91[JPT][hapmap]
rs2733171	0.83[CHB][hapmap];0.91[JPT][hapmap]
rs2733174	0.88[CHB][hapmap];0.91[JPT][hapmap]
rs2733188	0.83[CHB][hapmap];0.87[JPT][hapmap]
rs2733332	0.88[CHB][hapmap];0.82[JPT][hapmap]
rs2920267	0.82[CHB][hapmap];0.91[JPT][hapmap]
rs2951899	0.81[JPT][hapmap]
rs2951901	0.91[JPT][hapmap]
rs2951903	0.83[CHB][hapmap];0.87[JPT][hapmap]
rs2951904	0.83[CHB][hapmap];0.86[JPT][hapmap]
rs2962990	0.83[CHB][hapmap];0.91[JPT][hapmap]
rs2962991	0.83[CHB][hapmap];0.91[JPT][hapmap]
rs2962992	0.85[JPT][hapmap]
rs2962993	0.83[CHB][hapmap];0.87[JPT][hapmap]
rs34262415	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35646942	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3803454	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3803455	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs41472450	1.00[YRI][hapmap]
rs4399497	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4774899	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4774902	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62022986	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62025331	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs715338	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7170133	0.81[EUR][1000 genomes]
rs7183392	0.95[YRI][hapmap]
rs7496293	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3422474	chr15:56867190-57244330	Strong transcription ZNF genes & repeats Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv833020	chr15:57055947-57216068	Enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
3	nsv457162	chr15:57083006-57225766	Flanking Active TSS Weak transcription Active TSS Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
4	nsv569577	chr15:57083006-57225766	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
5	nsv1042486	chr15:57094598-57505992	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
6	nsv542393	chr15:57115116-57341363	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57180200-57208000	Weak transcription	Fetal Muscle Trunk	muscle
2	chr15:57181600-57204000	Weak transcription	Thymus	Thymus
3	chr15:57182000-57209200	Weak transcription	Fetal Stomach	stomach
4	chr15:57182600-57204200	Weak transcription	Fetal Thymus	thymus
5	chr15:57191800-57208000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr15:57194400-57208600	Weak transcription	Left Ventricle	heart
7	chr15:57196000-57205800	Weak transcription	HSMMtube	muscle
8	chr15:57196200-57207800	Weak transcription	Fetal Brain Female	brain
9	chr15:57197600-57207200	Weak transcription	Fetal Muscle Leg	muscle
10	chr15:57199000-57199800	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
11	chr15:57199000-57200000	Flanking Active TSS	NHEK	skin
12	chr15:57199000-57200200	Enhancers	Primary B cells from cord blood	blood
13	chr15:57199000-57200400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
14	chr15:57199000-57209000	Weak transcription	Brain Germinal Matrix	brain
15	chr15:57199200-57199800	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
16	chr15:57199200-57200000	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
17	chr15:57199200-57200000	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
18	chr15:57199200-57200000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
19	chr15:57199200-57200000	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr15:57199200-57200000	Active TSS	Rectal Mucosa Donor 29	rectum
21	chr15:57199200-57200200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
22	chr15:57199200-57209000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr15:57199400-57199800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr15:57199400-57199800	Active TSS	Primary Natural Killer cells fromperipheralblood	blood
25	chr15:57199400-57199800	Enhancers	NHDF-Ad	bronchial
26	chr15:57199400-57200000	Enhancers	Primary hematopoietic stem cells	blood
27	chr15:57199400-57200000	Active TSS	Colon Smooth Muscle	Colon
28	chr15:57199400-57200000	Active TSS	Duodenum Smooth Muscle	Duodenum
29	chr15:57199400-57200000	Active TSS	HMEC	breast
30	chr15:57199400-57200200	Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr15:57199400-57200200	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr15:57199400-57200200	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr15:57199400-57200200	Enhancers	Liver	Liver
34	chr15:57199400-57200200	Enhancers	Dnd41	blood
35	chr15:57199400-57209200	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr15:57199600-57199800	Active TSS	Primary T helper cells PMA-I stimulated	--
37	chr15:57199600-57200000	Active TSS	Primary T regulatory cells fromperipheralblood	blood
38	chr15:57199600-57200000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr15:57199600-57200000	Active TSS	Monocytes-CD14+_RO01746	blood
40	chr15:57199600-57200200	Active TSS	Duodenum Mucosa	Duodenum
41	chr15:57199600-57200200	Active TSS	GM12878-XiMat	blood
42	chr15:57199600-57200400	Enhancers	Primary T killer memory cells from peripheral blood	blood
43	chr15:57199600-57203000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
44	chr15:57199600-57203000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr15:57199600-57209000	Weak transcription	Brain Hippocampus Middle	brain
46	chr15:57199600-57209200	Weak transcription	Psoas Muscle	Psoas

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