Variant report

Variant	rs10513515
Chromosome Location	chr3:157219233-157219234
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	chr3:156870742..156872251-chr3:157218002..157219744,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000163660	Chromatin interaction
ENSG00000201778	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs1009872	0.93[CEU][hapmap];1.00[CHB][hapmap];0.81[YRI][hapmap];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1114237	0.93[CEU][hapmap];1.00[CHB][hapmap];0.81[YRI][hapmap];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1596343	0.86[CEU][hapmap]
rs16827662	0.81[EUR][1000 genomes]
rs16827705	0.93[CEU][hapmap];1.00[CHB][hapmap];0.90[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16827727	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16827846	0.85[CEU][hapmap]
rs17406704	0.86[CEU][hapmap]
rs1822395	0.85[CEU][hapmap]
rs1822397	0.86[CEU][hapmap]
rs1822398	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1838140	0.92[CEU][hapmap]
rs35638371	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35973239	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4258914	0.96[YRI][hapmap]
rs4611770	0.80[AFR][1000 genomes]
rs57566161	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs58178116	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62280982	0.81[AFR][1000 genomes]
rs6779693	0.96[YRI][hapmap];0.81[AFR][1000 genomes]
rs73158515	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73158516	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73158523	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73158525	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73158527	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73158534	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73158539	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73158545	0.90[EUR][1000 genomes]
rs73158547	0.90[EUR][1000 genomes]
rs73158550	0.90[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	esv2757900	chr3:157090166-157254684	Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	esv2759193	chr3:157090166-157254684	Active TSS Enhancers Strong transcription Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:157213200-157221200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr3:157216600-157219800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr3:157217200-157220000	Enhancers	HUVEC	blood vessel
4	chr3:157217400-157222200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr3:157217600-157219400	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr3:157217800-157219400	Enhancers	K562	blood
7	chr3:157217800-157221000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr3:157217800-157235400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr3:157218000-157220800	Weak transcription	Fetal Brain Female	brain
10	chr3:157218000-157220800	Weak transcription	HSMM	muscle
11	chr3:157218000-157221600	Enhancers	iPS-18 Cell Line	embryonic stem cell
12	chr3:157218200-157219400	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr3:157218200-157220000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr3:157218200-157220000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
15	chr3:157218200-157220000	Weak transcription	HUES6 Cell Line	embryonic stem cell
16	chr3:157218200-157220600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr3:157218200-157220800	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr3:157218200-157220800	Weak transcription	HSMMtube	muscle
19	chr3:157218200-157221000	Weak transcription	Colonic Mucosa	Colon
20	chr3:157218200-157221000	Weak transcription	Pancreas	Pancrea
21	chr3:157218200-157221000	Weak transcription	NH-A	brain
22	chr3:157218200-157221600	Enhancers	iPS-20b Cell Line	embryonic stem cell
23	chr3:157218400-157219400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr3:157218400-157219400	Weak transcription	HUES64 Cell Line	embryonic stem cell
25	chr3:157218400-157220800	Weak transcription	H1 Cell Line	embryonic stem cell
26	chr3:157218400-157220800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr3:157218400-157220800	Weak transcription	NHLF	lung
28	chr3:157218400-157221000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr3:157218400-157221000	Weak transcription	Osteobl	bone
30	chr3:157218800-157220800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr3:157218800-157220800	Weak transcription	Rectal Mucosa Donor 31	rectum
32	chr3:157218800-157222200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr3:157219000-157219400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
34	chr3:157219000-157219800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr3:157219000-157222000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr3:157219200-157219400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr3:157219200-157219600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
38	chr3:157219200-157220800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr3:157219200-157220800	Active TSS	Brain Germinal Matrix	brain
40	chr3:157219200-157221400	Active TSS	Fetal Kidney	kidney

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