Variant report

Variant	rs9508564
Chromosome Location	chr13:30403859-30403860
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:30403000..30404793-chr13:30686519..30690620,3	MCF-7	breast:

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs1058650	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11147398	0.86[ASN][1000 genomes]
rs12872400	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1323931	0.96[ASN][1000 genomes]
rs1410110	0.87[ASN][1000 genomes]
rs2025604	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2182129	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2234416	0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2388246	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2388247	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2761938	0.85[ASN][1000 genomes]
rs2761939	0.87[ASN][1000 genomes]
rs2761940	0.83[ASN][1000 genomes]
rs278034	0.83[ASN][1000 genomes]
rs35541102	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4083610	0.86[ASN][1000 genomes]
rs4238128	0.86[ASN][1000 genomes]
rs4265673	0.87[ASN][1000 genomes]
rs4297554	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4387451	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4769775	0.86[ASN][1000 genomes]
rs6490429	0.87[ASN][1000 genomes]
rs6490430	0.87[ASN][1000 genomes]
rs72623487	0.86[ASN][1000 genomes]
rs7320474	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7326253	0.87[ASN][1000 genomes]
rs7335148	0.87[ASN][1000 genomes]
rs765404	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7981622	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7995666	0.86[ASN][1000 genomes]
rs9314975	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9314978	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9506226	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9506229	0.87[ASN][1000 genomes]
rs9506231	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9506233	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9508553	0.93[ASN][1000 genomes]
rs9508554	0.86[ASN][1000 genomes]
rs9508557	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9508558	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9508559	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9508560	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9508561	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9508568	0.83[ASN][1000 genomes]
rs9550494	0.86[ASN][1000 genomes]
rs9551741	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9551744	0.85[ASN][1000 genomes]
rs9551751	0.94[ASN][1000 genomes]
rs9551753	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9578136	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9578139	0.87[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	nsv899961	chr13:30226924-30407273	Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS	Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	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
3	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:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:30376600-30420600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr13:30385800-30406800	Weak transcription	Pancreas	Pancrea
3	chr13:30385800-30410600	Weak transcription	Small Intestine	intestine
4	chr13:30386000-30406200	Weak transcription	Fetal Intestine Small	intestine
5	chr13:30391200-30410600	Weak transcription	Ovary	ovary
6	chr13:30392000-30415600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr13:30393000-30404400	Weak transcription	Osteobl	bone
8	chr13:30393200-30404200	Weak transcription	HSMM	muscle
9	chr13:30393800-30406800	Weak transcription	Primary T cells from cord blood	blood
10	chr13:30393800-30406800	Weak transcription	Colon Smooth Muscle	Colon
11	chr13:30394000-30410600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
12	chr13:30394200-30413400	Weak transcription	Primary hematopoietic stem cells	blood
13	chr13:30394400-30407600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr13:30394400-30410600	Weak transcription	Primary T helper cells fromperipheralblood	blood
15	chr13:30397000-30405800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr13:30397800-30404400	Weak transcription	NHDF-Ad	bronchial
17	chr13:30398600-30407000	Weak transcription	Brain Hippocampus Middle	brain
18	chr13:30402000-30409400	Weak transcription	Primary B cells from cord blood	blood
19	chr13:30402400-30404800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr13:30402800-30405400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
21	chr13:30403000-30404200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr13:30403000-30404800	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr13:30403000-30406800	Weak transcription	Psoas Muscle	Psoas
24	chr13:30403200-30404600	Weak transcription	Hela-S3	cervix
25	chr13:30403200-30407000	Weak transcription	Gastric	stomach
26	chr13:30403400-30406800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr13:30403600-30406800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr13:30403800-30404200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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