Variant report

Variant	rs12524343
Chromosome Location	chr6:15208761-15208762
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:15207140..15215305-chr6:15243300..15250227,33	K562	blood:
2	chr6:15087732..15091365-chr6:15208564..15213428,7	K562	blood:
3	chr6:15208660..15211196-chr6:15241386..15243147,2	MCF-7	breast:
4	chr6:15086750..15092578-chr6:15208564..15214623,13	K562	blood:

Variant related genes	Relation type
ENSG00000008083	Chromatin interaction
ENSG00000234261	Chromatin interaction
ENSG00000271888	Chromatin interaction
ENSG00000235488	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs12527989	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12529516	0.85[ASN][1000 genomes]
rs12529596	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12529633	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12530202	0.90[CEU][hapmap];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17687052	0.82[ASN][1000 genomes]
rs1969755	0.82[ASN][1000 genomes]
rs2295954	0.82[ASN][1000 genomes]
rs34100628	0.97[ASN][1000 genomes]
rs58894024	0.97[ASN][1000 genomes]
rs59583140	0.97[ASN][1000 genomes]
rs59928045	0.97[ASN][1000 genomes]
rs6909967	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73359662	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73375535	0.97[ASN][1000 genomes]
rs73375542	0.97[ASN][1000 genomes]
rs73375558	0.97[ASN][1000 genomes]
rs73375561	0.97[ASN][1000 genomes]
rs73375565	0.90[ASN][1000 genomes]
rs7747401	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7760174	0.96[YRI][hapmap];0.85[AFR][1000 genomes]
rs9349970	0.83[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830593	chr6:15049636-15244190	Enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv830594	chr6:15171158-15261296	Flanking Active TSS Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
3	nsv1027010	chr6:15201803-15425629	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15206400-15209000	Enhancers	Osteobl	bone
2	chr6:15206800-15210400	Weak transcription	K562	blood
3	chr6:15207400-15208800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr6:15207400-15210400	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr6:15207600-15210200	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr6:15208000-15208800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr6:15208000-15209000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr6:15208000-15209000	Active TSS	iPS-20b Cell Line	embryonic stem cell
9	chr6:15208000-15209200	Enhancers	Cortex derived primary cultured neurospheres	brain
10	chr6:15208200-15209000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr6:15208200-15209400	Enhancers	Primary monocytes fromperipheralblood	blood
12	chr6:15208200-15209600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr6:15208200-15209600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr6:15208200-15210600	Enhancers	iPS-18 Cell Line	embryonic stem cell
15	chr6:15208400-15208800	Bivalent Enhancer	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr6:15208400-15208800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr6:15208400-15208800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr6:15208400-15208800	Enhancers	NHDF-Ad	bronchial
19	chr6:15208400-15209000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr6:15208400-15209200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr6:15208400-15210600	Enhancers	HUES6 Cell Line	embryonic stem cell
22	chr6:15208400-15210600	Enhancers	iPS-15b Cell Line	embryonic stem cell
23	chr6:15208400-15210800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
24	chr6:15208400-15222000	Weak transcription	Right Atrium	heart
25	chr6:15208600-15209000	Enhancers	A549	lung
26	chr6:15208600-15209200	Enhancers	Monocytes-CD14+_RO01746	blood
27	chr6:15208600-15210400	Enhancers	HUES48 Cell Line	embryonic stem cell
28	chr6:15208600-15210600	Enhancers	H1 Cell Line	embryonic stem cell

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