Variant report

Variant	rs9829728
Chromosome Location	chr3:150814395-150814396
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:150673352..150675410-chr3:150813592..150815680,2	K562	blood:
2	chr3:150807677..150811549-chr3:150812693..150816960,6	MCF-7	breast:
3	chr3:150803206..150805499-chr3:150813440..150815817,3	MCF-7	breast:
4	chr3:150813043..150817753-chr3:150819414..150822906,4	MCF-7	breast:
5	chr3:150803142..150806355-chr3:150813532..150818047,7	MCF-7	breast:
6	chr3:150812906..150816565-chr3:150818005..150820586,3	K562	blood:

Variant related genes	Relation type
ENSG00000144893	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1003246	0.90[EUR][1000 genomes]
rs1005726	0.94[CEU][hapmap];0.84[EUR][1000 genomes]
rs10755104	1.00[CEU][hapmap];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10935825	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs10935826	0.81[EUR][1000 genomes]
rs10935827	1.00[CEU][hapmap];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10935828	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs11914598	0.89[CEU][hapmap]
rs11919212	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs13434276	0.81[ASN][1000 genomes]
rs1346943	0.83[ASN][1000 genomes]
rs1431492	0.89[EUR][1000 genomes]
rs1431493	0.90[EUR][1000 genomes]
rs16863172	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs1835668	1.00[CEU][hapmap]
rs1897296	0.89[CEU][hapmap];0.81[ASN][1000 genomes]
rs1920392	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs2014240	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs2060081	0.94[CEU][hapmap];0.84[EUR][1000 genomes]
rs3773615	0.94[CEU][hapmap];0.81[EUR][1000 genomes]
rs3915228	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs61184267	0.90[EUR][1000 genomes]
rs6414377	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs6440721	0.81[EUR][1000 genomes]
rs6765294	0.94[CEU][hapmap];0.82[EUR][1000 genomes]
rs6767918	1.00[CEU][hapmap];0.81[ASN][1000 genomes]
rs6772640	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs6780120	0.90[EUR][1000 genomes]
rs6787683	1.00[CEU][hapmap]
rs6801591	0.90[EUR][1000 genomes]
rs6809388	0.89[CEU][hapmap]
rs6809705	0.89[CEU][hapmap]
rs7427471	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs7633492	0.85[EUR][1000 genomes]
rs7645665	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs9289832	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs9683109	1.00[CEU][hapmap]
rs970235	0.85[ASN][1000 genomes]
rs9822304	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9823077	0.94[CEU][hapmap];0.84[EUR][1000 genomes]
rs9848163	0.81[EUR][1000 genomes]
rs9850016	0.87[ASN][1000 genomes]
rs9876500	0.94[CEU][hapmap];0.83[EUR][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:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150806000-150814400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr3:150806600-150819000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr3:150806800-150817800	Weak transcription	Brain Cingulate Gyrus	brain
4	chr3:150807800-150818400	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr3:150809800-150827400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr3:150810200-150815600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr3:150811600-150821000	Weak transcription	Brain Substantia Nigra	brain
8	chr3:150811800-150814400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr3:150811800-150819000	Weak transcription	Brain Anterior Caudate	brain
10	chr3:150812000-150814400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr3:150812000-150819000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr3:150812000-150819200	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr3:150812000-150824800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr3:150812200-150814400	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr3:150812200-150814400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
16	chr3:150812200-150819200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr3:150812200-150819200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
18	chr3:150812400-150819600	Weak transcription	Primary hematopoietic stem cells	blood
19	chr3:150813600-150815200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
20	chr3:150813800-150814800	Enhancers	HUES48 Cell Line	embryonic stem cell
21	chr3:150813800-150815200	Enhancers	Fetal Heart	heart
22	chr3:150813800-150815600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr3:150813800-150815600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr3:150814000-150815000	Enhancers	Cortex derived primary cultured neurospheres	brain
25	chr3:150814200-150814600	Enhancers	ES-I3 Cell Line	embryonic stem cell
26	chr3:150814200-150814800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr3:150814200-150814800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr3:150814200-150814800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr3:150814200-150815000	Enhancers	Fetal Muscle Leg	muscle

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