Variant report

Variant	rs34385057
Chromosome Location	chr3:160821716-160821717
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	MAX	chr3:160821640-160823909	MCF-7	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr3:160818503..160825890-chr3:160937051..160945986,18	MCF-7	breast:
2	chr3:160819969..160822199-chr3:161125222..161127254,2	MCF-7	breast:
3	chr3:160821182..160827138-chr3:160937374..160941314,7	MCF-7	breast:
4	chr3:160813033..160824577-chr3:161083489..161092050,35	MCF-7	breast:

Variant related genes	Relation type
NMD3	TF binding region
B3GALNT1	TF binding region
ENSG00000196542	Chromatin interaction
ENSG00000271052	Chromatin interaction
ENSG00000169251	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs2231254	0.82[AFR][1000 genomes]
rs34262149	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs34445748	0.84[AFR][1000 genomes]
rs34501729	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35630423	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35667982	0.80[AFR][1000 genomes]
rs35824993	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35985783	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs36011360	0.82[AFR][1000 genomes]
rs36046993	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs36082266	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73875483	1.00[AMR][1000 genomes]
rs73875487	1.00[AMR][1000 genomes]
rs73875491	0.83[AMR][1000 genomes]
rs73875495	1.00[AMR][1000 genomes]
rs73875499	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931072	chr3:160669567-161159779	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
2	nsv877704	chr3:160806859-160836006	Active TSS Strong transcription Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv877705	chr3:160818188-160836006	Flanking Active TSS Enhancers Active TSS Weak transcription Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv877706	chr3:160820175-160826404	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv877707	chr3:160820175-160836006	Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160781800-160822000	Weak transcription	Thymus	Thymus
2	chr3:160787000-160822000	Weak transcription	Primary T cells from cord blood	blood
3	chr3:160796200-160821800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr3:160797000-160822000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr3:160798600-160821800	Weak transcription	Brain Angular Gyrus	brain
6	chr3:160799800-160821800	Weak transcription	NHLF	lung
7	chr3:160799800-160822000	Weak transcription	HMEC	breast
8	chr3:160800400-160822200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr3:160800400-160822400	Weak transcription	Spleen	Spleen
10	chr3:160801000-160821800	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr3:160801200-160822000	Weak transcription	Muscle Satellite Cultured Cells	--
12	chr3:160801600-160821800	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr3:160802600-160822000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr3:160802600-160822400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr3:160802800-160822000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr3:160803400-160822000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr3:160803800-160822000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr3:160804400-160822000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr3:160804400-160822000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr3:160804600-160821800	Weak transcription	Brain Substantia Nigra	brain
21	chr3:160804600-160821800	Weak transcription	HUVEC	blood vessel
22	chr3:160804600-160822200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr3:160809000-160821800	Weak transcription	NHDF-Ad	bronchial
24	chr3:160809000-160822200	Weak transcription	Psoas Muscle	Psoas
25	chr3:160813400-160822000	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr3:160816000-160822200	Weak transcription	H9 Cell Line	embryonic stem cell
27	chr3:160817200-160822000	Weak transcription	Rectal Smooth Muscle	rectum
28	chr3:160817400-160822000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr3:160817800-160822000	Weak transcription	NHEK	skin
30	chr3:160818800-160822000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr3:160819000-160822200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
32	chr3:160819400-160821800	Weak transcription	Brain Cingulate Gyrus	brain
33	chr3:160819400-160822000	Weak transcription	Adipose Nuclei	Adipose
34	chr3:160819400-160822000	Weak transcription	Liver	Liver
35	chr3:160819400-160822000	Weak transcription	Duodenum Smooth Muscle	Duodenum
36	chr3:160819400-160822000	Weak transcription	Esophagus	oesophagus
37	chr3:160819400-160822000	Weak transcription	Right Atrium	heart
38	chr3:160819400-160822200	Weak transcription	Gastric	stomach
39	chr3:160819600-160821800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr3:160819600-160821800	Weak transcription	Stomach Mucosa	stomach
41	chr3:160820000-160822000	Weak transcription	Duodenum Mucosa	Duodenum
42	chr3:160820000-160822000	Weak transcription	Fetal Intestine Large	intestine
43	chr3:160820000-160822200	Weak transcription	Placenta	Placenta
44	chr3:160820200-160821800	Weak transcription	Fetal Kidney	kidney
45	chr3:160820200-160822000	Weak transcription	Brain Hippocampus Middle	brain
46	chr3:160820600-160821800	Weak transcription	Brain Anterior Caudate	brain
47	chr3:160820600-160821800	Weak transcription	Stomach Smooth Muscle	stomach
48	chr3:160820600-160822000	Weak transcription	Primary hematopoietic stem cells	blood
49	chr3:160820600-160822000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr3:160820600-160822000	Weak transcription	Aorta	Aorta

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