Variant report

Variant	rs138065889
Chromosome Location	chr3:160819342-160819343
allele	C/T
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	chr3:160818654-160819541	MCF-7	breast:	n/a	n/a
2	HA-E2F1	chr3:160818680-160819349	MCF-7	breast:	n/a	chr3:160818737-160818751
3	NR2F2	chr3:160818535-160819356	MCF-7	breast:	n/a	n/a
4	POLR2A	chr3:160818772-160819628	MCF-7	breast:	n/a	n/a
5	SIN3AK20	chr3:160818636-160819385	MCF-7	breast:	n/a	n/a
6	GATA3	chr3:160818391-160819430	MCF-7	breast:	n/a	chr3:160818542-160818550
7	POLR2A	chr3:160819305-160819372	MCF-7	breast:	n/a	n/a
8	POLR2A	chr3:160819270-160819448	MCF-7	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr3:160816932..160819441-chr3:160937058..160940131,3	MCF-7	breast:
2	chr3:160818503..160825890-chr3:160937051..160945986,18	MCF-7	breast:
3	chr3:160813033..160824577-chr3:161083489..161092050,35	MCF-7	breast:

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

Extended variants
information (count: 3 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:3 , 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

No data

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160780800-160821400	Weak transcription	Fetal Brain Male	brain
2	chr3:160781800-160822000	Weak transcription	Thymus	Thymus
3	chr3:160787000-160822000	Weak transcription	Primary T cells from cord blood	blood
4	chr3:160796200-160821800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr3:160797000-160822000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr3:160798600-160821800	Weak transcription	Brain Angular Gyrus	brain
7	chr3:160799800-160821800	Weak transcription	NHLF	lung
8	chr3:160799800-160822000	Weak transcription	HMEC	breast
9	chr3:160800200-160820000	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr3:160800400-160822200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr3:160800400-160822400	Weak transcription	Spleen	Spleen
12	chr3:160801000-160821800	Weak transcription	Pancreatic Islets	Pancreatic Islet
13	chr3:160801200-160822000	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr3:160801600-160821800	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr3:160802600-160821400	Weak transcription	HUES64 Cell Line	embryonic stem cell
16	chr3:160802600-160822000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr3:160802600-160822400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr3:160802800-160822000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr3:160803400-160822000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr3:160803800-160822000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr3:160804400-160822000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr3:160804400-160822000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr3:160804600-160820400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr3:160804600-160821800	Weak transcription	Brain Substantia Nigra	brain
25	chr3:160804600-160821800	Weak transcription	HUVEC	blood vessel
26	chr3:160804600-160822200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
27	chr3:160807800-160820200	Weak transcription	Pancreas	Pancrea
28	chr3:160809000-160821800	Weak transcription	NHDF-Ad	bronchial
29	chr3:160809000-160822200	Weak transcription	Psoas Muscle	Psoas
30	chr3:160813400-160822000	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr3:160814000-160821600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr3:160814600-160820800	Strong transcription	Fetal Muscle Leg	muscle
33	chr3:160815200-160820800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
34	chr3:160815200-160820800	Strong transcription	Brain Inferior Temporal Lobe	brain
35	chr3:160815600-160821400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
36	chr3:160815800-160820800	Strong transcription	Fetal Lung	lung
37	chr3:160816000-160819800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr3:160816000-160820000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr3:160816000-160821000	Strong transcription	Fetal Muscle Trunk	muscle
40	chr3:160816000-160822200	Weak transcription	H9 Cell Line	embryonic stem cell
41	chr3:160816200-160820800	Strong transcription	Ovary	ovary
42	chr3:160816400-160820600	Strong transcription	Stomach Smooth Muscle	stomach
43	chr3:160816400-160820800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr3:160816600-160819400	Strong transcription	Brain Cingulate Gyrus	brain
45	chr3:160816600-160819600	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
46	chr3:160816600-160820800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr3:160816800-160821000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
48	chr3:160817000-160821200	Strong transcription	Cortex derived primary cultured neurospheres	brain
49	chr3:160817200-160820200	Strong transcription	Brain Hippocampus Middle	brain
50	chr3:160817200-160820600	Strong transcription	Brain Anterior Caudate	brain

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