Variant report

Variant	rs6493047
Chromosome Location	chr15:42776399-42776400
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:42766882..42770681-chr15:42773569..42778929,5	K562	blood:
2	chr15:42764544..42766246-chr15:42776055..42778062,2	K562	blood:
3	chr15:42773178..42778058-chr15:42778885..42785896,9	K562	blood:
4	chr15:42775197..42777120-chr15:42783481..42785108,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000103994	Chromatin interaction
ENSG00000092531	Chromatin interaction

Extended variants
information (count: 80 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10775127	0.88[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11856807	1.00[EUR][1000 genomes]
rs12102204	1.00[EUR][1000 genomes]
rs12593511	1.00[EUR][1000 genomes]
rs12911561	1.00[EUR][1000 genomes]
rs1659214	1.00[EUR][1000 genomes]
rs1659216	1.00[EUR][1000 genomes]
rs1659220	1.00[EUR][1000 genomes]
rs1659223	1.00[EUR][1000 genomes]
rs1659225	1.00[EUR][1000 genomes]
rs1871156	1.00[EUR][1000 genomes]
rs2244773	1.00[EUR][1000 genomes]
rs2289293	1.00[EUR][1000 genomes]
rs2289297	1.00[EUR][1000 genomes]
rs2412694	1.00[EUR][1000 genomes]
rs2412695	1.00[EUR][1000 genomes]
rs2412716	1.00[EUR][1000 genomes]
rs2578651	1.00[EUR][1000 genomes]
rs2595935	1.00[EUR][1000 genomes]
rs2620372	1.00[EUR][1000 genomes]
rs28364379	1.00[EUR][1000 genomes]
rs28364398	1.00[EUR][1000 genomes]
rs28364400	1.00[EUR][1000 genomes]
rs28364462	1.00[EUR][1000 genomes]
rs28364472	1.00[EUR][1000 genomes]
rs28364491	1.00[EUR][1000 genomes]
rs28364495	1.00[EUR][1000 genomes]
rs28364498	1.00[EUR][1000 genomes]
rs28364500	1.00[EUR][1000 genomes]
rs28364503	1.00[EUR][1000 genomes]
rs28364504	1.00[EUR][1000 genomes]
rs28364507	1.00[EUR][1000 genomes]
rs28364509	1.00[EUR][1000 genomes]
rs28364511	1.00[EUR][1000 genomes]
rs28364519	1.00[EUR][1000 genomes]
rs28364522	1.00[EUR][1000 genomes]
rs28364523	1.00[EUR][1000 genomes]
rs28364524	1.00[EUR][1000 genomes]
rs28364526	1.00[EUR][1000 genomes]
rs28364540	1.00[EUR][1000 genomes]
rs28364541	1.00[EUR][1000 genomes]
rs28364544	1.00[EUR][1000 genomes]
rs28364557	1.00[EUR][1000 genomes]
rs28489155	1.00[EUR][1000 genomes]
rs28621687	1.00[EUR][1000 genomes]
rs28745879	1.00[EUR][1000 genomes]
rs2899058	0.88[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3743002	1.00[EUR][1000 genomes]
rs3803342	1.00[EUR][1000 genomes]
rs4556762	1.00[EUR][1000 genomes]
rs4923939	1.00[EUR][1000 genomes]
rs4924657	1.00[EUR][1000 genomes]
rs4924670	1.00[EUR][1000 genomes]
rs5028173	1.00[EUR][1000 genomes]
rs6493038	1.00[EUR][1000 genomes]
rs6493041	1.00[EUR][1000 genomes]
rs6493051	1.00[EUR][1000 genomes]
rs7164196	1.00[EUR][1000 genomes]
rs7169553	1.00[EUR][1000 genomes]
rs7177193	1.00[EUR][1000 genomes]
rs7177463	1.00[EUR][1000 genomes]
rs7177521	1.00[EUR][1000 genomes]
rs7178396	1.00[EUR][1000 genomes]
rs7181940	1.00[EUR][1000 genomes]
rs7183399	1.00[EUR][1000 genomes]
rs8023568	1.00[EUR][1000 genomes]
rs8036149	1.00[EUR][1000 genomes]
rs8036163	1.00[EUR][1000 genomes]
rs8036993	1.00[EUR][1000 genomes]
rs8040720	1.00[EUR][1000 genomes]
rs8042603	1.00[EUR][1000 genomes]
rs8043033	1.00[EUR][1000 genomes]
rs936603	1.00[EUR][1000 genomes]
rs9920851	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931223	chr15:41989960-42781757	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
2	nsv1049445	chr15:42239738-42830484	Enhancers Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
3	nsv542366	chr15:42239738-42830484	Weak transcription Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
4	nsv832987	chr15:42627447-42792348	Active TSS Strong transcription Enhancers Flanking Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
5	esv3334708	chr15:42664344-42827738	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
6	nsv528725	chr15:42755555-43104406	Weak transcription Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:42744200-42781800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr15:42744200-42782400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
3	chr15:42750000-42782600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr15:42750200-42782400	Weak transcription	Aorta	Aorta
5	chr15:42750800-42782400	Weak transcription	Ovary	ovary
6	chr15:42751000-42782400	Weak transcription	Fetal Lung	lung
7	chr15:42754600-42782400	Weak transcription	HSMMtube	muscle
8	chr15:42756000-42777600	Weak transcription	Lung	lung
9	chr15:42756000-42782600	Weak transcription	Esophagus	oesophagus
10	chr15:42756200-42782400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr15:42757800-42782600	Weak transcription	Gastric	stomach
12	chr15:42758000-42781600	Weak transcription	Duodenum Smooth Muscle	Duodenum
13	chr15:42758000-42782400	Weak transcription	NHLF	lung
14	chr15:42758200-42781600	Weak transcription	Brain Hippocampus Middle	brain
15	chr15:42758200-42781600	Weak transcription	Stomach Smooth Muscle	stomach
16	chr15:42758200-42781800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr15:42758400-42776800	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr15:42758400-42780000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr15:42758400-42780400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
20	chr15:42758400-42780600	Weak transcription	NHEK	skin
21	chr15:42758400-42781800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr15:42758400-42781800	Weak transcription	Brain Anterior Caudate	brain
23	chr15:42758400-42782200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr15:42758400-42782200	Weak transcription	Fetal Brain Female	brain
25	chr15:42758400-42782200	Weak transcription	Thymus	Thymus
26	chr15:42759800-42782200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr15:42761400-42782000	Weak transcription	Fetal Stomach	stomach
28	chr15:42761800-42782400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
29	chr15:42763400-42777200	Weak transcription	Primary B cells from peripheral blood	blood
30	chr15:42763400-42777200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
31	chr15:42763400-42777400	Weak transcription	Primary T helper cells fromperipheralblood	blood
32	chr15:42763400-42782400	Weak transcription	Duodenum Mucosa	Duodenum
33	chr15:42763600-42780000	Weak transcription	Hela-S3	cervix
34	chr15:42763600-42780800	Weak transcription	Muscle Satellite Cultured Cells	--
35	chr15:42763600-42781600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr15:42763600-42782200	Weak transcription	HMEC	breast
37	chr15:42763800-42782400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
38	chr15:42763800-42782400	Weak transcription	Fetal Intestine Large	intestine
39	chr15:42763800-42782400	Weak transcription	Rectal Smooth Muscle	rectum
40	chr15:42764000-42777600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr15:42764200-42782400	Weak transcription	HUES64 Cell Line	embryonic stem cell
42	chr15:42764600-42777000	Weak transcription	Liver	Liver
43	chr15:42764600-42782200	Weak transcription	HUVEC	blood vessel
44	chr15:42764800-42777400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
45	chr15:42764800-42782000	Weak transcription	Rectal Mucosa Donor 31	rectum
46	chr15:42764800-42782200	Weak transcription	HSMM	muscle
47	chr15:42765000-42782400	Weak transcription	Osteobl	bone
48	chr15:42766800-42781000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr15:42767000-42776800	Weak transcription	Left Ventricle	heart
50	chr15:42767000-42780600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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