Variant report

Variant	rs9825097
Chromosome Location	chr3:105079361-105079362
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	chr3:104873565..104875448-chr3:105078442..105081323,2	MCF-7	breast:

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs1044243	0.81[CEU][hapmap]
rs13317379	0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs13322961	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17181561	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17181701	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs17189101	0.84[CEU][hapmap]
rs17189643	0.84[CEU][hapmap]
rs17189711	0.83[CEU][hapmap]
rs28452673	0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs751554	0.84[CEU][hapmap];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7610031	0.84[CEU][hapmap]
rs7633779	0.84[CEU][hapmap]
rs7645474	0.83[CEU][hapmap]
rs9288807	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9822014	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9826369	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9829190	0.83[CEU][hapmap]
rs9831077	0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9832489	1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9839346	0.84[CEU][hapmap]
rs9840990	0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9842772	0.84[CEU][hapmap]
rs9843750	0.84[CEU][hapmap]
rs9851399	0.91[CEU][hapmap];0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9854028	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9855810	0.84[CEU][hapmap]
rs9859198	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9866561	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9876895	0.84[CEU][hapmap]
rs9876906	0.91[CEU][hapmap];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9877002	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9877483	0.92[ASN][1000 genomes]
rs9882494	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9990253	0.83[CEU][hapmap]

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	nsv525071	chr3:105004853-105409321	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv829650	chr3:105070893-105255036	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105073000-105081200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
2	chr3:105073400-105084400	Weak transcription	Aorta	Aorta
3	chr3:105074400-105083600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr3:105074800-105079800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr3:105074800-105083000	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr3:105076200-105083600	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr3:105077400-105080600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr3:105077400-105082800	Enhancers	Muscle Satellite Cultured Cells	--
9	chr3:105077600-105080600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr3:105077600-105081000	Enhancers	HUVEC	blood vessel
11	chr3:105077600-105081200	Weak transcription	Primary neutrophils fromperipheralblood	blood
12	chr3:105077800-105079400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr3:105077800-105083800	Enhancers	Osteobl	bone
14	chr3:105077800-105084000	Enhancers	HSMM	muscle
15	chr3:105078000-105083800	Enhancers	NHEK	skin
16	chr3:105078200-105080800	Enhancers	HMEC	breast
17	chr3:105078600-105080800	Weak transcription	Monocytes-CD14+_RO01746	blood
18	chr3:105078600-105081400	Weak transcription	HSMMtube	muscle
19	chr3:105078600-105082200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr3:105078600-105084200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr3:105078600-105084400	Weak transcription	Primary monocytes fromperipheralblood	blood
22	chr3:105078600-105084400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
23	chr3:105078600-105084800	Weak transcription	Hela-S3	cervix
24	chr3:105078800-105079800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr3:105078800-105079800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr3:105078800-105081000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr3:105078800-105081000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr3:105078800-105083000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
29	chr3:105079000-105080000	Weak transcription	NHLF	lung
30	chr3:105079000-105081000	Weak transcription	A549	lung
31	chr3:105079000-105081200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr3:105079000-105084000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr3:105079000-105084400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr3:105079200-105079600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr3:105079200-105079600	Weak transcription	NHDF-Ad	bronchial
36	chr3:105079200-105080400	Weak transcription	NH-A	brain

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