Variant report

Variant	rs808603
Chromosome Location	chr6:4863291-4863292
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:4857248..4859696-chr6:4863230..4865110,2	K562	blood:
2	chr6:4853455..4855875-chr6:4862739..4864405,2	K562	blood:
3	chr6:4857248..4860930-chr6:4863042..4865412,3	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PPP1R3G-3	chr6:4863258-4863352	NONHSAT107491

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1265336	0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap]
rs1771884	0.93[ASN][1000 genomes]
rs1883327	0.83[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs233477	0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap]
rs233479	1.00[JPT][hapmap]
rs55653939	0.87[ASN][1000 genomes]
rs6925763	0.90[ASN][1000 genomes]
rs73364556	0.88[ASN][1000 genomes]
rs7763686	0.81[ASN][1000 genomes]
rs808589	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs808611	0.95[AFR][1000 genomes];0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs808615	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs808622	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs9405783	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3366530	chr6:4471528-4865322	ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1023527	chr6:4729592-5387176	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	esv2422499	chr6:4745428-5073222	Enhancers Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Active TSS Bivalent Enhancer Flanking 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	18 gene(s)	inside rSNPs	diseases
4	nsv1015888	chr6:4787784-4883663	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv830577	chr6:4834567-5050544	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:4847400-4871000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
2	chr6:4849200-4865400	Weak transcription	Aorta	Aorta
3	chr6:4849800-4863800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr6:4849800-4868000	Weak transcription	Hela-S3	cervix
5	chr6:4854000-4870400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr6:4854400-4870800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr6:4854600-4871200	Weak transcription	NH-A	brain
8	chr6:4855200-4882200	Weak transcription	Fetal Stomach	stomach
9	chr6:4856800-4865400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr6:4856800-4883600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr6:4858800-4880400	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr6:4859000-4876600	Weak transcription	Ovary	ovary
13	chr6:4859200-4867800	Weak transcription	A549	lung
14	chr6:4859600-4864400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr6:4859600-4870200	Weak transcription	HUES64 Cell Line	embryonic stem cell
16	chr6:4859600-4870800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr6:4859600-4871200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr6:4859800-4865400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr6:4859800-4870800	Weak transcription	NHEK	skin
20	chr6:4859800-4871000	Weak transcription	HMEC	breast
21	chr6:4859800-4871200	Weak transcription	HUES6 Cell Line	embryonic stem cell
22	chr6:4860000-4863400	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr6:4860200-4870800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr6:4861600-4863400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
25	chr6:4861800-4871400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr6:4861800-4872000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr6:4862200-4863600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr6:4862200-4864000	Weak transcription	K562	blood
29	chr6:4862200-4871400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr6:4862400-4872000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr6:4862600-4864200	Weak transcription	Placenta	Placenta
32	chr6:4862600-4865400	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr6:4863000-4863400	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
34	chr6:4863000-4864000	ZNF genes & repeats	Primary hematopoietic stem cells	blood
35	chr6:4863000-4864400	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr6:4863000-4865000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
37	chr6:4863000-4865200	ZNF genes & repeats	Primary B cells from peripheral blood	blood
38	chr6:4863000-4865600	ZNF genes & repeats	GM12878-XiMat	blood
39	chr6:4863200-4863600	Enhancers	HUES48 Cell Line	embryonic stem cell
40	chr6:4863200-4863800	Enhancers	iPS-18 Cell Line	embryonic stem cell
41	chr6:4863200-4863800	ZNF genes & repeats	Primary T cells from cord blood	blood
42	chr6:4863200-4863800	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
43	chr6:4863200-4864200	ZNF genes & repeats	Primary B cells from cord blood	blood

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