Variant report

Variant	rs16977152
Chromosome Location	chr15:57208441-57208442
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:57207306..57209100-chr15:57209137..57210700,2	K562	blood:

Variant related genes	Relation type
ENSG00000137871	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12593585	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12593613	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12594574	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16953313	0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16977165	1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16977226	0.91[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs213150	0.89[CHB][hapmap];0.83[ASN][1000 genomes]
rs35615435	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3803456	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56193354	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57722526	1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs58121543	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs58169256	1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs60056005	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60219100	1.00[EUR][1000 genomes]
rs60972002	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61382868	1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs74018413	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74018420	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs74018424	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs74018426	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs74018429	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs74018439	1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs74018441	1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs74018460	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]

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:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57182000-57209200	Weak transcription	Fetal Stomach	stomach
2	chr15:57194400-57208600	Weak transcription	Left Ventricle	heart
3	chr15:57199000-57209000	Weak transcription	Brain Germinal Matrix	brain
4	chr15:57199200-57209000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr15:57199400-57209200	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr15:57199600-57209000	Weak transcription	Brain Hippocampus Middle	brain
7	chr15:57199600-57209200	Weak transcription	Psoas Muscle	Psoas
8	chr15:57200000-57209000	Weak transcription	Primary T helper cells PMA-I stimulated	--
9	chr15:57200000-57209000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
10	chr15:57200200-57209000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
11	chr15:57200200-57209000	Weak transcription	Liver	Liver
12	chr15:57200200-57209200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
13	chr15:57200200-57209200	Weak transcription	Primary T helper cells fromperipheralblood	blood
14	chr15:57200200-57209200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr15:57200400-57209000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
16	chr15:57200400-57209000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
17	chr15:57200400-57209200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr15:57202600-57209600	Weak transcription	NH-A	brain
19	chr15:57203000-57209000	Weak transcription	Brain Angular Gyrus	brain
20	chr15:57203400-57208800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr15:57203400-57209000	Weak transcription	Brain Substantia Nigra	brain
22	chr15:57203400-57209200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr15:57204800-57208800	Weak transcription	Thymus	Thymus
24	chr15:57205000-57208600	Weak transcription	Fetal Thymus	thymus
25	chr15:57205600-57209000	Weak transcription	Brain Anterior Caudate	brain
26	chr15:57206000-57208800	Weak transcription	Adipose Nuclei	Adipose
27	chr15:57206000-57209000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr15:57206000-57209800	Weak transcription	HSMM	muscle
29	chr15:57206200-57209000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr15:57206200-57209000	Weak transcription	Fetal Heart	heart
31	chr15:57206200-57209000	Weak transcription	NHDF-Ad	bronchial
32	chr15:57206200-57209200	Weak transcription	Skeletal Muscle Male	skeletal muscle
33	chr15:57206200-57209200	Weak transcription	HSMMtube	muscle
34	chr15:57206200-57209400	Weak transcription	Dnd41	blood
35	chr15:57206200-57209600	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr15:57206400-57209000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr15:57206400-57209000	Weak transcription	HUVEC	blood vessel
38	chr15:57206400-57209200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr15:57206400-57209200	Weak transcription	Osteobl	bone
40	chr15:57206400-57209600	Weak transcription	NHLF	lung
41	chr15:57206800-57209200	Weak transcription	Fetal Kidney	kidney
42	chr15:57207000-57208600	Weak transcription	Pancreas	Pancrea
43	chr15:57207000-57209000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr15:57207000-57209200	Weak transcription	H9 Cell Line	embryonic stem cell
45	chr15:57207000-57209200	Weak transcription	Fetal Intestine Large	intestine
46	chr15:57207000-57209800	Weak transcription	Aorta	Aorta
47	chr15:57207200-57208800	Strong transcription	Fetal Muscle Leg	muscle
48	chr15:57207200-57209000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr15:57207200-57209200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
50	chr15:57207400-57209400	Weak transcription	HUES6 Cell Line	embryonic stem cell

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