Variant report

Variant	rs3179616
Chromosome Location	chr15:73049823-73049824
allele	A/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	NFIC	chr15:73049786-73050254	SK-N-SH	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:73049186..73051770-chr15:73072949..73076067,3	K562	blood:

Variant related genes	Relation type
ADPGK	TF binding region
ENSG00000159322	Chromatin interaction
ENSG00000260898	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs11072387	0.87[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs12439375	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12440951	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12441084	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12592955	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12594667	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12594844	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12594938	0.87[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs16957293	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2012253	0.81[ASN][1000 genomes]
rs2278543	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2415166	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs28398258	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs28502551	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34337823	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35136341	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35958407	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3759870	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4776611	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4776616	0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4777528	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4777529	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4777530	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4777531	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4777533	0.94[ASN][1000 genomes]
rs4777537	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4777538	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4777540	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4777543	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4777545	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56915357	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs57621041	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58600393	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59049627	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs59152128	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs60405894	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs60601886	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60674997	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61311866	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62017593	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62017598	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62017623	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7178409	0.83[ASN][1000 genomes]
rs72662112	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72737337	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs730180	0.81[ASN][1000 genomes]
rs7495022	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8032586	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758386	chr15:72819785-73120560	Strong transcription ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
2	esv2760039	chr15:72819785-73120560	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv428307	chr15:72819785-73120560	Strong transcription Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
4	nsv482512	chr15:73023099-73175952	Flanking Active TSS Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 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	chr15:73002000-73054600	Weak transcription	Fetal Brain Male	brain
2	chr15:73030600-73058400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr15:73035800-73050600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr15:73041800-73071000	Strong transcription	Liver	Liver
5	chr15:73042200-73053800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr15:73042200-73055400	Strong transcription	Fetal Muscle Leg	muscle
7	chr15:73042200-73056200	Strong transcription	Thymus	Thymus
8	chr15:73042200-73058600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr15:73042200-73058600	Strong transcription	A549	lung
10	chr15:73042800-73050000	Strong transcription	HSMM	muscle
11	chr15:73043200-73050400	Strong transcription	Colonic Mucosa	Colon
12	chr15:73043200-73053400	Strong transcription	GM12878-XiMat	blood
13	chr15:73043200-73053800	Strong transcription	Stomach Smooth Muscle	stomach
14	chr15:73043400-73050000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr15:73043400-73050000	Strong transcription	Brain Anterior Caudate	brain
16	chr15:73043400-73051000	Strong transcription	Esophagus	oesophagus
17	chr15:73043400-73051200	Strong transcription	Pancreas	Pancrea
18	chr15:73043400-73053600	Strong transcription	Rectal Mucosa Donor 31	rectum
19	chr15:73043400-73055200	Strong transcription	HUES6 Cell Line	embryonic stem cell
20	chr15:73043400-73055800	Strong transcription	Fetal Stomach	stomach
21	chr15:73043400-73056200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
22	chr15:73043400-73056600	Strong transcription	HUES64 Cell Line	embryonic stem cell
23	chr15:73043400-73056600	Strong transcription	Fetal Muscle Trunk	muscle
24	chr15:73043400-73056800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
25	chr15:73043400-73058800	Strong transcription	HUES48 Cell Line	embryonic stem cell
26	chr15:73043400-73058800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
27	chr15:73043400-73059000	Strong transcription	Fetal Intestine Small	intestine
28	chr15:73043400-73059000	Strong transcription	Left Ventricle	heart
29	chr15:73043400-73059200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr15:73043400-73059200	Strong transcription	Fetal Intestine Large	intestine
31	chr15:73043600-73050600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr15:73043800-73051200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
33	chr15:73043800-73051200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr15:73043800-73053600	Strong transcription	H1 Cell Line	embryonic stem cell
35	chr15:73043800-73057000	Strong transcription	Duodenum Smooth Muscle	Duodenum
36	chr15:73043800-73057200	Strong transcription	Sigmoid Colon	Sigmoid Colon
37	chr15:73043800-73073600	Strong transcription	Fetal Thymus	thymus
38	chr15:73044000-73050000	Strong transcription	Brain Hippocampus Middle	brain
39	chr15:73044000-73051200	Strong transcription	Fetal Brain Female	brain
40	chr15:73044000-73053400	Strong transcription	Fetal Lung	lung
41	chr15:73044000-73054000	Strong transcription	HepG2	liver
42	chr15:73044000-73057400	Strong transcription	Dnd41	blood
43	chr15:73044000-73058600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr15:73044200-73051200	Strong transcription	H9 Cell Line	embryonic stem cell
45	chr15:73044200-73059200	Strong transcription	Primary T cells from cord blood	blood
46	chr15:73044200-73067600	Strong transcription	Rectal Mucosa Donor 29	rectum
47	chr15:73044400-73056400	Weak transcription	Fetal Heart	heart
48	chr15:73044400-73056400	Strong transcription	Hela-S3	cervix
49	chr15:73044600-73056200	Strong transcription	Ovary	ovary
50	chr15:73045000-73053000	Strong transcription	Skeletal Muscle Male	skeletal muscle

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