Variant report

Variant	rs13077864
Chromosome Location	chr3:136609838-136609839
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:136579482..136582272-chr3:136609445..136613552,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000158092	Chromatin interaction
ENSG00000239213	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10804645	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11717974	0.92[ASN][1000 genomes]
rs12629000	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1406539	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16844241	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1965107	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2043365	0.84[EUR][1000 genomes]
rs2176270	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4678271	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4678275	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4678447	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62410363	0.96[ASN][1000 genomes]
rs62410438	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71630059	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7610507	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7631541	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7648198	0.90[ASN][1000 genomes]
rs835636	0.83[ASN][1000 genomes]
rs9682783	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9845460	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv877531	chr3:136517016-136662954	Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription 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	26 gene(s)	inside rSNPs	diseases
2	nsv877532	chr3:136526939-136662603	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
3	nsv877533	chr3:136539689-136662954	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:136582400-136612600	Weak transcription	Pancreas	Pancrea
2	chr3:136582600-136612600	Weak transcription	Brain Hippocampus Middle	brain
3	chr3:136582600-136612600	Weak transcription	NH-A	brain
4	chr3:136582600-136612600	Weak transcription	Osteobl	bone
5	chr3:136582800-136612800	Weak transcription	HSMM	muscle
6	chr3:136588000-136612600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr3:136588000-136612600	Weak transcription	Adipose Nuclei	Adipose
8	chr3:136588000-136612600	Weak transcription	Ovary	ovary
9	chr3:136588600-136612600	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr3:136591800-136612600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr3:136592000-136612600	Weak transcription	Left Ventricle	heart
12	chr3:136592000-136622400	Weak transcription	Aorta	Aorta
13	chr3:136593800-136619600	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr3:136594000-136612400	Weak transcription	Hela-S3	cervix
15	chr3:136601200-136613000	Weak transcription	Esophagus	oesophagus
16	chr3:136602200-136611800	Weak transcription	Right Atrium	heart
17	chr3:136603000-136617400	Weak transcription	Brain Angular Gyrus	brain
18	chr3:136604400-136612600	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr3:136604400-136612800	Weak transcription	Spleen	Spleen
20	chr3:136604600-136612600	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr3:136605400-136610200	Weak transcription	Primary B cells from cord blood	blood
22	chr3:136605400-136612600	Weak transcription	Primary neutrophils fromperipheralblood	blood
23	chr3:136605600-136610600	Weak transcription	HUVEC	blood vessel
24	chr3:136606400-136610400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
25	chr3:136606400-136612000	Weak transcription	Thymus	Thymus
26	chr3:136606600-136610400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
27	chr3:136606600-136610800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
28	chr3:136606600-136610800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr3:136606600-136610800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
30	chr3:136606600-136611000	Weak transcription	Primary T helper cells fromperipheralblood	blood
31	chr3:136606600-136612400	Weak transcription	HUES48 Cell Line	embryonic stem cell
32	chr3:136606600-136612600	Weak transcription	Fetal Heart	heart
33	chr3:136606600-136617600	Weak transcription	K562	blood
34	chr3:136606800-136612600	Weak transcription	Dnd41	blood
35	chr3:136607200-136610600	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr3:136607400-136610400	Weak transcription	Primary T cells from cord blood	blood
37	chr3:136607400-136611600	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
38	chr3:136607600-136618800	Weak transcription	Monocytes-CD14+_RO01746	blood
39	chr3:136607800-136610400	ZNF genes & repeats	Fetal Intestine Small	intestine
40	chr3:136607800-136610400	ZNF genes & repeats	Fetal Stomach	stomach
41	chr3:136608000-136610000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
42	chr3:136608000-136610200	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr3:136608000-136611000	Weak transcription	Primary T helper cells PMA-I stimulated	--
44	chr3:136608000-136612400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
45	chr3:136608200-136611600	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr3:136608400-136610400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
47	chr3:136608400-136612600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr3:136608600-136610200	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr3:136608600-136610200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
50	chr3:136608600-136610200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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