Variant report

Variant	rs73012153
Chromosome Location	chr3:156885468-156885469
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	FOXA1	chr3:156885169-156885567	T-47D	breast:	n/a	n/a
2	CEBPB	chr3:156885153-156885578	MCF-7	breast:	n/a	chr3:156885385-156885398
3	FOXA1	chr3:156885187-156885538	T-47D	breast:	n/a	n/a
4	GATA3	chr3:156884975-156885818	MCF-7	breast:	n/a	chr3:156885147-156885168
5	GATA3	chr3:156884837-156885700	MCF-7	breast:	n/a	chr3:156885147-156885168
6	GATA3	chr3:156885153-156885801	T-47D	breast:	n/a	n/a
7	FOXA2	chr3:156885251-156885475	HepG2	liver:	n/a	n/a
8	GATA3	chr3:156885090-156885756	T-47D	breast:	n/a	chr3:156885147-156885168
9	NR2F2	chr3:156884924-156885805	MCF-7	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:156529223..156530794-chr3:156884048..156887029,2	MCF-7	breast:
2	chr3:156532344..156534533-chr3:156884722..156886636,3	MCF-7	breast:

Variant related genes	Relation type
KRT18P34	TF binding region

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs58032323	1.00[AMR][1000 genomes]
rs59496343	1.00[AFR][1000 genomes]
rs61553506	0.89[AFR][1000 genomes]
rs73012142	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73012145	1.00[AMR][1000 genomes]
rs73012147	1.00[AMR][1000 genomes]
rs73012149	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73012159	0.82[AFR][1000 genomes]
rs73012167	0.89[AFR][1000 genomes]
rs73012171	0.89[AFR][1000 genomes]
rs73012173	0.87[AFR][1000 genomes]
rs73012176	0.89[AFR][1000 genomes]
rs73012181	0.89[AFR][1000 genomes]
rs73012196	0.84[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829766	chr3:156811536-157020551	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
2	nsv520331	chr3:156858300-156915650	Flanking Active TSS Active TSS Genic enhancers Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	139 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156879000-156885600	Weak transcription	Psoas Muscle	Psoas
2	chr3:156879000-156891800	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr3:156879000-156892000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr3:156879200-156891800	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr3:156879200-156891800	Weak transcription	Fetal Stomach	stomach
6	chr3:156879200-156891800	Weak transcription	Fetal Thymus	thymus
7	chr3:156879200-156892000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr3:156879400-156891200	Weak transcription	Fetal Muscle Leg	muscle
9	chr3:156879800-156891800	Weak transcription	Primary T cells fromperipheralblood	blood
10	chr3:156880000-156888800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr3:156880000-156891400	Weak transcription	Placenta	Placenta
12	chr3:156880000-156891400	Weak transcription	GM12878-XiMat	blood
13	chr3:156880200-156888400	Weak transcription	Primary B cells from cord blood	blood
14	chr3:156880200-156891600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr3:156880200-156891800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr3:156880400-156891600	Weak transcription	Primary T helper cells PMA-I stimulated	--
17	chr3:156881000-156891600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr3:156881200-156892200	Weak transcription	Small Intestine	intestine
19	chr3:156881800-156888400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
20	chr3:156881800-156892000	Weak transcription	Lung	lung
21	chr3:156883000-156885800	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr3:156883600-156886200	Enhancers	Liver	Liver
23	chr3:156883800-156886200	Enhancers	Rectal Mucosa Donor 31	rectum
24	chr3:156884000-156886000	Enhancers	Skeletal Muscle Female	skeletal muscle
25	chr3:156884000-156886600	Enhancers	Fetal Intestine Small	intestine
26	chr3:156884000-156886800	Enhancers	Fetal Intestine Large	intestine
27	chr3:156884200-156885600	Enhancers	Pancreatic Islets	Pancreatic Islet
28	chr3:156885000-156885600	Weak transcription	Rectal Mucosa Donor 29	rectum
29	chr3:156885000-156886000	Enhancers	Duodenum Mucosa	Duodenum
30	chr3:156885000-156891800	Weak transcription	HepG2	liver
31	chr3:156885200-156891800	Weak transcription	Fetal Kidney	kidney
32	chr3:156885400-156885600	Enhancers	Skeletal Muscle Male	skeletal muscle

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