Variant report

Variant	rs4778060
Chromosome Location	chr15:93494197-93494198
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:93481797..93483603-chr15:93493383..93494907,2	K562	blood:

Variant related genes	Relation type
ENSG00000173575	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10152428	1.00[CHB][hapmap]
rs11074124	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs12900800	1.00[CHB][hapmap]
rs1406712	1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[TSI][hapmap]
rs1470072	0.85[EUR][1000 genomes]
rs16947284	0.82[CEU][hapmap];1.00[CHB][hapmap];0.86[YRI][hapmap];0.87[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs17525576	0.87[CEU][hapmap];0.85[EUR][1000 genomes]
rs17610095	0.87[CEU][hapmap];1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17610312	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.86[TSI][hapmap];0.83[EUR][1000 genomes]
rs17610452	1.00[CHB][hapmap]
rs2272458	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs2272463	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.89[LWK][hapmap];0.86[MKK][hapmap];0.86[TSI][hapmap];0.86[YRI][hapmap];0.91[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs4778061	1.00[CHB][hapmap]
rs4778064	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6497014	1.00[CHB][hapmap]
rs7166161	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.91[TSI][hapmap];0.88[EUR][1000 genomes]
rs7172853	0.88[EUR][1000 genomes]
rs7173808	0.81[EUR][1000 genomes]
rs7174740	1.00[CHB][hapmap]
rs7180629	1.00[CHB][hapmap];0.81[EUR][1000 genomes]
rs8028865	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[EUR][1000 genomes]
rs8032603	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.86[TSI][hapmap];0.85[EUR][1000 genomes]
rs8041241	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.82[TSI][hapmap];0.83[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	nsv948738	chr15:93070742-93728147	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	169 gene(s)	inside rSNPs	diseases
2	nsv1049490	chr15:93134405-93591660	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	151 gene(s)	inside rSNPs	diseases
3	nsv530846	chr15:93323949-94030462	Active TSS Strong transcription Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	153 gene(s)	inside rSNPs	diseases
4	nsv948881	chr15:93383740-93603608	Genic enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	91 gene(s)	inside rSNPs	diseases
5	nsv530847	chr15:93444024-93555676	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	40 gene(s)	inside rSNPs	diseases
6	nsv917347	chr15:93444094-93586814	Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	39 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	chr15:93474800-93501800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr15:93477200-93501200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
3	chr15:93478600-93503200	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr15:93485000-93494600	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr15:93486000-93495000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr15:93486800-93494400	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr15:93487600-93500000	Strong transcription	Brain Angular Gyrus	brain
8	chr15:93488200-93494200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr15:93488200-93494200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr15:93489400-93494200	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
11	chr15:93489400-93494400	ZNF genes & repeats	Primary T cells from cord blood	blood
12	chr15:93489800-93494800	Strong transcription	Gastric	stomach
13	chr15:93490200-93494200	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
14	chr15:93490200-93494200	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
15	chr15:93490200-93494200	ZNF genes & repeats	A549	lung
16	chr15:93490400-93494200	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
17	chr15:93490600-93494200	ZNF genes & repeats	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr15:93490800-93494200	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr15:93491600-93498400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
20	chr15:93493000-93494400	Strong transcription	Fetal Brain Female	brain
21	chr15:93493000-93500400	Strong transcription	Primary T helper naive cells from peripheral blood	blood
22	chr15:93493000-93508600	Strong transcription	Hela-S3	cervix
23	chr15:93493200-93494200	Strong transcription	Colonic Mucosa	Colon
24	chr15:93493200-93494200	Strong transcription	Skeletal Muscle Female	skeletal muscle
25	chr15:93493200-93495800	Weak transcription	Pancreas	Pancrea
26	chr15:93493200-93499800	Strong transcription	Primary T helper memory cells from peripheral blood 2	blood
27	chr15:93493200-93503800	Strong transcription	Brain Substantia Nigra	brain
28	chr15:93493200-93504400	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
29	chr15:93493200-93504800	Strong transcription	Fetal Kidney	kidney
30	chr15:93493200-93508200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr15:93493200-93512200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr15:93493200-93533000	Strong transcription	Cortex derived primary cultured neurospheres	brain
33	chr15:93493200-93536000	Strong transcription	HSMM	muscle
34	chr15:93493200-93571000	Strong transcription	Dnd41	blood
35	chr15:93493200-93571200	Strong transcription	Rectal Mucosa Donor 29	rectum
36	chr15:93493400-93494400	Strong transcription	Left Ventricle	heart
37	chr15:93493400-93494400	Strong transcription	HUVEC	blood vessel
38	chr15:93493400-93494600	Genic enhancers	HepG2	liver
39	chr15:93493400-93494800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr15:93493400-93494800	Strong transcription	Rectal Smooth Muscle	rectum
41	chr15:93493400-93495800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr15:93493400-93495800	Weak transcription	Right Ventricle	heart
43	chr15:93493400-93495800	Weak transcription	Stomach Mucosa	stomach
44	chr15:93493400-93495800	Weak transcription	Spleen	Spleen
45	chr15:93493400-93496000	Weak transcription	Psoas Muscle	Psoas
46	chr15:93493400-93497200	Strong transcription	Brain Germinal Matrix	brain
47	chr15:93493400-93498200	Strong transcription	Fetal Stomach	stomach
48	chr15:93493400-93500400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
49	chr15:93493400-93500400	Strong transcription	NHDF-Ad	bronchial
50	chr15:93493400-93500600	Strong transcription	Primary T killer memory cells from peripheral blood	blood

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