Variant report

Variant	rs4682800
Chromosome Location	chr3:46002005-46002006
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:46000436..46002879-chr3:46005170..46007859,2	MCF-7	breast:
2	chr3:46000938..46003324-chr3:46007900..46010295,2	K562	blood:

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs1072755	0.94[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs11130080	0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs12630101	0.84[JPT][hapmap];0.83[ASN][1000 genomes]
rs12635494	0.86[ASN][1000 genomes]
rs12635657	0.84[JPT][hapmap]
rs12639598	0.84[JPT][hapmap];0.82[ASN][1000 genomes]
rs13066048	0.94[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs13091821	0.91[ASN][1000 genomes]
rs13091979	0.91[ASN][1000 genomes]
rs1392291	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1532071	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1546079	0.84[CEU][hapmap]
rs1552489	1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[ASN][1000 genomes]
rs1552490	1.00[ASN][1000 genomes]
rs1601867	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17078449	0.89[CHB][hapmap]
rs1994488	1.00[ASN][1000 genomes]
rs1994489	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1994490	0.96[CEU][hapmap];0.84[JPT][hapmap];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2054866	0.94[CHB][hapmap];0.95[JPT][hapmap];0.97[ASN][1000 genomes]
rs2171530	0.82[ASN][1000 genomes]
rs2234358	1.00[CEU][hapmap];0.94[CHB][hapmap];0.90[JPT][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2248228	0.94[CHB][hapmap];0.88[ASN][1000 genomes]
rs2291470	0.83[ASN][1000 genomes]
rs35465473	0.98[ASN][1000 genomes]
rs3733100	0.96[CEU][hapmap];0.84[CHB][hapmap];0.85[JPT][hapmap];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3733103	0.84[CHB][hapmap];0.84[ASN][1000 genomes]
rs3774634	0.94[CHB][hapmap];0.94[JPT][hapmap];0.96[ASN][1000 genomes]
rs3774635	0.96[ASN][1000 genomes]
rs3774638	0.84[CHB][hapmap]
rs3774639	0.94[CHB][hapmap];0.89[JPT][hapmap];0.93[ASN][1000 genomes]
rs3796373	0.84[CHB][hapmap];0.84[ASN][1000 genomes]
rs3796375	0.89[CHB][hapmap];0.84[JPT][hapmap];0.88[ASN][1000 genomes]
rs3821884	0.96[CEU][hapmap];0.89[CHB][hapmap];0.84[JPT][hapmap];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3851347	0.81[JPT][hapmap]
rs4535265	0.88[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs4682799	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4683148	0.84[CHB][hapmap];0.82[ASN][1000 genomes]
rs4683149	0.89[ASN][1000 genomes]
rs4683152	0.93[ASN][1000 genomes]
rs4683153	0.81[EUR][1000 genomes]
rs4683154	0.93[ASN][1000 genomes]
rs4683156	0.97[ASN][1000 genomes]
rs4683157	0.94[CHB][hapmap];0.90[JPT][hapmap];0.95[ASN][1000 genomes]
rs62242787	0.81[ASN][1000 genomes]
rs6781121	0.81[EUR][1000 genomes]
rs6800954	0.82[CHB][hapmap]
rs7129	0.84[CHB][hapmap];0.84[ASN][1000 genomes]
rs730983	0.85[JPT][hapmap]
rs737452	0.84[JPT][hapmap]
rs751552	0.89[CHB][hapmap];0.84[JPT][hapmap];0.86[ASN][1000 genomes]
rs751553	0.89[CHB][hapmap];0.84[JPT][hapmap];0.86[ASN][1000 genomes]
rs9311380	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs936938	1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs936939	0.83[CHB][hapmap]
rs9824253	0.99[ASN][1000 genomes]
rs9831315	0.84[CHB][hapmap];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv498008	chr3:45733423-46319401	Strong transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv834678	chr3:45804294-46010256	Enhancers Flanking Bivalent TSS/Enh Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
4	nsv876736	chr3:45900621-46027410	Strong transcription Enhancers Transcr. at gene 5' and 3' Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:45959400-46009800	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr3:45980800-46013400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
3	chr3:45981600-46025000	Strong transcription	Fetal Intestine Large	intestine
4	chr3:45983200-46012400	Strong transcription	Monocytes-CD14+_RO01746	blood
5	chr3:45986200-46006800	Strong transcription	Fetal Intestine Small	intestine
6	chr3:45986200-46007600	Strong transcription	Fetal Stomach	stomach
7	chr3:45986400-46006200	Strong transcription	Fetal Muscle Leg	muscle
8	chr3:45986400-46006800	Strong transcription	Fetal Muscle Trunk	muscle
9	chr3:45986400-46007600	Strong transcription	Duodenum Smooth Muscle	Duodenum
10	chr3:45986400-46012200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr3:45986400-46026600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr3:45986600-46009000	Strong transcription	Primary B cells from cord blood	blood
13	chr3:45986600-46012000	Strong transcription	Primary monocytes fromperipheralblood	blood
14	chr3:45986600-46026800	Strong transcription	HUES48 Cell Line	embryonic stem cell
15	chr3:45986800-46012200	Strong transcription	Primary B cells from peripheral blood	blood
16	chr3:45987200-46013600	Strong transcription	Primary hematopoietic stem cells	blood
17	chr3:45987200-46027200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr3:45987400-46026600	Strong transcription	HUES6 Cell Line	embryonic stem cell
19	chr3:45987600-46007800	Strong transcription	K562	blood
20	chr3:45987800-46012200	Strong transcription	HepG2	liver
21	chr3:45987800-46026400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
22	chr3:45987800-46026800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr3:45987800-46027200	Strong transcription	HUES64 Cell Line	embryonic stem cell
24	chr3:45988000-46012000	Strong transcription	H1 Cell Line	embryonic stem cell
25	chr3:45988000-46026600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
26	chr3:45988200-46009800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr3:45988200-46012000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr3:45988800-46011800	Strong transcription	Lung	lung
29	chr3:45989400-46013800	Strong transcription	Dnd41	blood
30	chr3:45990600-46017200	Strong transcription	Rectal Mucosa Donor 29	rectum
31	chr3:45991200-46006800	Strong transcription	HSMMtube	muscle
32	chr3:45991200-46012000	Strong transcription	Sigmoid Colon	Sigmoid Colon
33	chr3:45991200-46017400	Strong transcription	Rectal Mucosa Donor 31	rectum
34	chr3:45991400-46009800	Strong transcription	Aorta	Aorta
35	chr3:45991400-46009800	Strong transcription	NHLF	lung
36	chr3:45991600-46003200	Strong transcription	GM12878-XiMat	blood
37	chr3:45992400-46003800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr3:45992400-46004200	Strong transcription	Small Intestine	intestine
39	chr3:45992600-46013200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
40	chr3:45992600-46013600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr3:45992800-46006400	Strong transcription	Primary T cells from cord blood	blood
42	chr3:45993000-46013600	Strong transcription	Thymus	Thymus
43	chr3:45993200-46003800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr3:45993200-46007000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
45	chr3:45993400-46003400	Strong transcription	Fetal Thymus	thymus
46	chr3:45993600-46003400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
47	chr3:45994000-46002800	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
48	chr3:45994000-46003600	Strong transcription	Primary T helper cells fromperipheralblood	blood
49	chr3:45994200-46007600	Strong transcription	Duodenum Mucosa	Duodenum
50	chr3:45994400-46007600	Strong transcription	Adipose Nuclei	Adipose

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