Variant report

Variant	rs2892464
Chromosome Location	chr13:30413830-30413831
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	chr13:30410070..30411618-chr13:30413618..30415237,2	MCF-7	breast:
2	chr13:30413488..30415848-chr13:30648656..30650250,2	MCF-7	breast:

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs12861019	0.82[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs12864739	0.82[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs12865525	0.82[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs12867537	0.82[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs12868298	0.82[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs12869833	0.84[EUR][1000 genomes]
rs12872768	0.82[AFR][1000 genomes]
rs12874615	0.80[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs12875231	0.88[AFR][1000 genomes]
rs12877107	0.82[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs1631987	0.85[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs166760	0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17073897	0.82[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs17073905	0.82[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs17073919	0.82[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs1747057	0.85[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs1747060	0.85[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs1747061	0.88[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs1747062	0.88[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs1747063	0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17502757	0.84[EUR][1000 genomes]
rs1772726	0.85[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs2256122	0.85[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs2476650	0.82[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs2476651	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs2761929	0.85[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2761930	0.85[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs2761931	0.84[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs2761932	0.82[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs2761934	0.80[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs2761936	0.85[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs278031	0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs278032	0.92[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs278033	0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs278035	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs278036	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs278039	0.81[EUR][1000 genomes]
rs2794295	0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2794297	0.84[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs2794300	0.82[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs3118079	0.84[EUR][1000 genomes]
rs3118080	0.81[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs34232669	0.81[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs34333613	0.83[EUR][1000 genomes]
rs35693706	0.82[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs35828457	0.82[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs36082926	0.84[EUR][1000 genomes]
rs57634252	0.84[EUR][1000 genomes]
rs71427282	0.82[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs71434758	0.84[EUR][1000 genomes]
rs719199	0.84[EUR][1000 genomes]
rs7985986	0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7992684	0.84[EUR][1000 genomes]
rs818763	0.85[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs818764	0.84[AFR][1000 genomes];0.84[EUR][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	esv3520592	chr13:30243601-30648554	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	esv3520593	chr13:30243601-30648554	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:30376600-30420600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr13:30392000-30415600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr13:30404400-30420000	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr13:30404600-30415800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr13:30404800-30415600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr13:30404800-30418200	Weak transcription	HSMM	muscle
7	chr13:30405200-30415800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr13:30405400-30419200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr13:30405600-30414800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr13:30406000-30415000	Weak transcription	NHEK	skin
11	chr13:30406000-30419600	Weak transcription	Monocytes-CD14+_RO01746	blood
12	chr13:30406200-30417800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr13:30407200-30414200	Weak transcription	Hela-S3	cervix
14	chr13:30407200-30415800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr13:30407400-30415800	Weak transcription	Gastric	stomach
16	chr13:30407400-30419200	Weak transcription	Fetal Intestine Small	intestine
17	chr13:30407400-30419400	Weak transcription	Brain Angular Gyrus	brain
18	chr13:30407400-30419800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr13:30407400-30419800	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr13:30407400-30420800	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr13:30407600-30415800	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr13:30407600-30418400	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr13:30407800-30414200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr13:30407800-30418600	Weak transcription	Brain Substantia Nigra	brain
25	chr13:30408200-30415800	Weak transcription	Pancreas	Pancrea
26	chr13:30408200-30420800	Weak transcription	Right Atrium	heart
27	chr13:30408400-30415800	Weak transcription	Aorta	Aorta
28	chr13:30408400-30415800	Weak transcription	Placenta Amnion	Placenta Amnion
29	chr13:30409800-30421600	Weak transcription	Left Ventricle	heart
30	chr13:30410000-30415800	Weak transcription	H1 Cell Line	embryonic stem cell
31	chr13:30410000-30420000	Enhancers	Primary T helper cells PMA-I stimulated	--
32	chr13:30410200-30414600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
33	chr13:30410200-30415600	Weak transcription	GM12878-XiMat	blood
34	chr13:30410800-30415800	Weak transcription	Primary B cells from peripheral blood	blood
35	chr13:30411000-30414200	Weak transcription	Brain Anterior Caudate	brain
36	chr13:30411000-30414800	Weak transcription	Brain Hippocampus Middle	brain
37	chr13:30411000-30415800	Weak transcription	Thymus	Thymus
38	chr13:30411000-30420800	Weak transcription	Ovary	ovary
39	chr13:30411200-30414400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr13:30411200-30414600	Weak transcription	Colon Smooth Muscle	Colon
41	chr13:30411200-30414800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
42	chr13:30411200-30415800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
43	chr13:30411200-30415800	Weak transcription	Brain Cingulate Gyrus	brain
44	chr13:30411200-30418200	Weak transcription	Osteobl	bone
45	chr13:30411200-30418600	Weak transcription	Adipose Nuclei	Adipose
46	chr13:30411400-30414800	Weak transcription	HUES64 Cell Line	embryonic stem cell
47	chr13:30411800-30415800	Weak transcription	Stomach Mucosa	stomach
48	chr13:30412000-30416000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
49	chr13:30412000-30416000	Weak transcription	Psoas Muscle	Psoas
50	chr13:30412000-30421000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood

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