Variant report

Variant	rs16852921
Chromosome Location	chr3:142772785-142772786
allele	A/G
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:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:142772025..142774338-chr3:142838383..142839930,2	K562	blood:
2	chr3:142764453..142766415-chr3:142770589..142773461,2	K562	blood:
3	chr3:142771385..142780409-chr3:142780501..142789449,10	K562	blood:
4	chr3:142755078..142757417-chr3:142772716..142774834,2	MCF-7	breast:
5	chr3:142768453..142771583-chr3:142772247..142775036,3	MCF-7	breast:
6	chr3:142769496..142773173-chr3:142775914..142778153,3	K562	blood:
7	chr3:142771143..142772796-chr3:142793296..142795434,2	K562	blood:
8	chr3:142758048..142759562-chr3:142771594..142774382,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000163714	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10804685	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11708528	0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11713025	0.81[CHB][hapmap]
rs13073437	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1979836	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34350727	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35746477	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3886152	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4683442	0.94[CEU][hapmap]
rs4683725	0.87[EUR][1000 genomes]
rs4683727	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4683739	0.90[CEU][hapmap]
rs6440128	0.94[CEU][hapmap];0.86[CHB][hapmap]
rs6789950	0.89[CHB][hapmap]
rs73157683	0.86[ASN][1000 genomes]
rs750869	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs750870	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8179934	0.82[AMR][1000 genomes];0.85[EUR][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	nsv877562	chr3:142573789-142846370	Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	esv2757893	chr3:142720230-142962932	Enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	esv2759183	chr3:142720230-142964373	Strong transcription Weak transcription Enhancers Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS 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 target site	20 gene(s)	inside rSNPs	diseases
4	nsv591921	chr3:142762487-142841740	Bivalent/Poised TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
5	nsv1004467	chr3:142768867-142800605	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS	Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	diseases
6	nsv1004682	chr3:142768867-142804154	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:142729200-142785200	Weak transcription	Aorta	Aorta
2	chr3:142734400-142785200	Weak transcription	Esophagus	oesophagus
3	chr3:142749000-142784200	Weak transcription	Small Intestine	intestine
4	chr3:142749200-142779000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr3:142756000-142774400	Weak transcription	Stomach Mucosa	stomach
6	chr3:142761800-142776600	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr3:142763400-142787000	Weak transcription	Spleen	Spleen
8	chr3:142763800-142773200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr3:142764200-142784200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr3:142764600-142772800	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr3:142764600-142775200	Weak transcription	Brain Angular Gyrus	brain
12	chr3:142764800-142779600	Weak transcription	Fetal Brain Male	brain
13	chr3:142765000-142782200	Weak transcription	Fetal Heart	heart
14	chr3:142765400-142791600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr3:142766600-142775000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr3:142766600-142776000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr3:142766600-142776000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
18	chr3:142766600-142776000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr3:142766800-142775400	Strong transcription	Fetal Muscle Leg	muscle
20	chr3:142766800-142776000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr3:142766800-142776200	Strong transcription	HUES6 Cell Line	embryonic stem cell
22	chr3:142766800-142776200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
23	chr3:142766800-142776200	Strong transcription	Rectal Mucosa Donor 29	rectum
24	chr3:142766800-142776200	Strong transcription	Rectal Mucosa Donor 31	rectum
25	chr3:142766800-142776200	Strong transcription	Osteobl	bone
26	chr3:142766800-142776400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
27	chr3:142766800-142777000	Strong transcription	HMEC	breast
28	chr3:142766800-142777400	Strong transcription	Hela-S3	cervix
29	chr3:142766800-142778000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr3:142766800-142778000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
31	chr3:142766800-142778000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr3:142766800-142778000	Strong transcription	Fetal Intestine Large	intestine
33	chr3:142766800-142778200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr3:142766800-142778200	Strong transcription	Fetal Thymus	thymus
35	chr3:142766800-142778800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr3:142766800-142778800	Strong transcription	Monocytes-CD14+_RO01746	blood
37	chr3:142766800-142779000	Strong transcription	HUES64 Cell Line	embryonic stem cell
38	chr3:142766800-142779000	Strong transcription	Primary monocytes fromperipheralblood	blood
39	chr3:142766800-142780800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr3:142766800-142780800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr3:142766800-142781000	Strong transcription	HUES48 Cell Line	embryonic stem cell
42	chr3:142766800-142781600	Strong transcription	Dnd41	blood
43	chr3:142767000-142775400	Strong transcription	K562	blood
44	chr3:142767000-142778200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr3:142767200-142776200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
46	chr3:142767200-142777400	Strong transcription	Primary T helper cells fromperipheralblood	blood
47	chr3:142767400-142772800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
48	chr3:142767400-142781400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr3:142767400-142786600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
50	chr3:142768000-142775800	Strong transcription	Primary hematopoietic stem cells	blood

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