Variant report

Variant	rs16863153
Chromosome Location	chr3:150815796-150815797
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:150807677..150811549-chr3:150812693..150816960,6	MCF-7	breast:
2	chr3:150803206..150805499-chr3:150813440..150815817,3	MCF-7	breast:
3	chr3:150813043..150817753-chr3:150819414..150822906,4	MCF-7	breast:
4	chr3:150814792..150816660-chr3:150824326..150826641,2	MCF-7	breast:
5	chr3:150803142..150806355-chr3:150813532..150818047,7	MCF-7	breast:
6	chr3:150812906..150816565-chr3:150818005..150820586,3	K562	blood:
7	chr3:150808254..150810835-chr3:150814904..150817365,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000144893	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs11706385	0.86[ASN][1000 genomes]
rs11707833	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11713719	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11714357	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs11714651	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11715095	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11715097	0.85[ASN][1000 genomes]
rs11715186	0.92[ASN][1000 genomes]
rs11715411	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11718038	0.86[ASN][1000 genomes]
rs1355125	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1355126	1.00[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs16863149	1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16863155	0.91[CHB][hapmap];0.92[JPT][hapmap];0.96[ASN][1000 genomes]
rs16863161	1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs16863203	1.00[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs16863204	0.82[CHB][hapmap];0.83[JPT][hapmap]
rs16863227	1.00[CHB][hapmap];0.92[JPT][hapmap];0.84[ASN][1000 genomes]
rs16863238	1.00[EUR][1000 genomes]
rs16863239	0.83[JPT][hapmap];1.00[EUR][1000 genomes]
rs1993404	0.91[ASN][1000 genomes]
rs1995799	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs3732756	0.82[CHB][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs57748833	0.86[ASN][1000 genomes]
rs58593708	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs906766	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[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	nsv915879	chr3:150607390-150860207	Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv829756	chr3:150692636-150889738	Weak transcription Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv460894	chr3:150770614-151095093	Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv592045	chr3:150770614-151095093	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	esv2757897	chr3:150791625-150957485	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	esv2759188	chr3:150791625-150957485	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv877648	chr3:150792444-150895145	Enhancers Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150806600-150819000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr3:150806800-150817800	Weak transcription	Brain Cingulate Gyrus	brain
3	chr3:150807800-150818400	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr3:150809800-150827400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr3:150811600-150821000	Weak transcription	Brain Substantia Nigra	brain
6	chr3:150811800-150819000	Weak transcription	Brain Anterior Caudate	brain
7	chr3:150812000-150819000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr3:150812000-150819200	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr3:150812000-150824800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr3:150812200-150819200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr3:150812200-150819200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
12	chr3:150812400-150819600	Weak transcription	Primary hematopoietic stem cells	blood
13	chr3:150814400-150816400	Genic enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr3:150814800-150818800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr3:150814800-150819000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr3:150814800-150819200	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr3:150814800-150819200	Weak transcription	HUES48 Cell Line	embryonic stem cell
18	chr3:150814800-150819400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr3:150815200-150817600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr3:150815200-150819000	Weak transcription	Fetal Heart	heart
21	chr3:150815600-150818000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr3:150815600-150819000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr3:150815600-150819000	Weak transcription	Fetal Muscle Leg	muscle
24	chr3:150815600-150819800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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