Variant report

Variant	rs7630024
Chromosome Location	chr3:67548852-67548853
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	chr3:67543627..67545753-chr3:67547156..67549290,2	MCF-7	breast:

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs11127623	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11705861	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11709258	0.87[ASN][1000 genomes]
rs11920877	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11923553	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12374036	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12635531	0.85[EUR][1000 genomes]
rs4327406	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4349513	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56393250	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs57077433	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs60806282	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62256386	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs62256387	0.81[EUR][1000 genomes]
rs62256391	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62256392	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62256395	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62256396	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62256399	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6779086	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6789939	0.84[EUR][1000 genomes]
rs6802566	0.85[EUR][1000 genomes]
rs6805028	0.85[EUR][1000 genomes]
rs6810165	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73088910	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7429940	0.82[EUR][1000 genomes]
rs7651649	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9873407	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1007093	chr3:67113534-67602973	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv470638	chr3:67367341-67814738	Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv460700	chr3:67393629-67712970	Genic enhancers Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv590560	chr3:67393629-67712970	Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv834719	chr3:67396626-67589852	Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
6	nsv1012416	chr3:67546244-67615531	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv590561	chr3:67548852-67690626	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:67488400-67566400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
2	chr3:67500800-67567000	Weak transcription	Pancreas	Pancrea
3	chr3:67504000-67559800	Weak transcription	Esophagus	oesophagus
4	chr3:67508200-67577600	Weak transcription	Spleen	Spleen
5	chr3:67511600-67560000	Weak transcription	Lung	lung
6	chr3:67511800-67565000	Weak transcription	Stomach Smooth Muscle	stomach
7	chr3:67512800-67554800	Weak transcription	Fetal Muscle Leg	muscle
8	chr3:67513200-67564800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr3:67513400-67567800	Weak transcription	NHLF	lung
10	chr3:67513600-67559800	Weak transcription	NHDF-Ad	bronchial
11	chr3:67514600-67559800	Weak transcription	Muscle Satellite Cultured Cells	--
12	chr3:67519800-67557400	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr3:67520800-67559800	Weak transcription	Skeletal Muscle Female	skeletal muscle
14	chr3:67521600-67580400	Weak transcription	Stomach Mucosa	stomach
15	chr3:67524200-67567000	Weak transcription	Placenta	Placenta
16	chr3:67526800-67583200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr3:67528200-67564400	Weak transcription	Fetal Lung	lung
18	chr3:67528200-67564800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr3:67529000-67559200	Weak transcription	GM12878-XiMat	blood
20	chr3:67530200-67560200	Weak transcription	NHEK	skin
21	chr3:67531400-67576200	Weak transcription	HMEC	breast
22	chr3:67533200-67577000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
23	chr3:67533400-67577600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr3:67534400-67576400	Weak transcription	Aorta	Aorta
25	chr3:67534600-67560000	Weak transcription	Right Ventricle	heart
26	chr3:67534600-67566200	Weak transcription	Gastric	stomach
27	chr3:67534800-67554200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
28	chr3:67534800-67554800	Weak transcription	Left Ventricle	heart
29	chr3:67534800-67560200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr3:67534800-67566200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr3:67535000-67578800	Weak transcription	Brain Hippocampus Middle	brain
32	chr3:67537400-67559800	Weak transcription	Ovary	ovary
33	chr3:67537400-67579600	Weak transcription	Small Intestine	intestine
34	chr3:67537600-67560200	Weak transcription	HSMMtube	muscle
35	chr3:67537600-67566800	Weak transcription	Duodenum Smooth Muscle	Duodenum
36	chr3:67539200-67549800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
37	chr3:67540800-67564400	Weak transcription	Fetal Kidney	kidney
38	chr3:67541400-67550000	Strong transcription	Primary T helper cells fromperipheralblood	blood
39	chr3:67541400-67582000	Weak transcription	Rectal Smooth Muscle	rectum
40	chr3:67542200-67559000	Strong transcription	Primary T cells from cord blood	blood
41	chr3:67542400-67564800	Weak transcription	HUES64 Cell Line	embryonic stem cell
42	chr3:67542400-67566400	Weak transcription	NH-A	brain
43	chr3:67542600-67549400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
44	chr3:67543200-67566000	Weak transcription	HUES48 Cell Line	embryonic stem cell
45	chr3:67543600-67550200	Strong transcription	Primary T cells fromperipheralblood	blood
46	chr3:67543600-67551600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr3:67544000-67549000	Strong transcription	Primary T helper cells PMA-I stimulated	--
48	chr3:67544200-67580200	Weak transcription	Placenta Amnion	Placenta Amnion
49	chr3:67544400-67567200	Weak transcription	Fetal Muscle Trunk	muscle
50	chr3:67544600-67549600	Weak transcription	Fetal Heart	heart

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