Variant report

Variant	rs12662979
Chromosome Location	chr6:35824734-35824735
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:35824380..35827322-chr6:35835824..35839323,3	K562	blood:
2	chr6:35822655..35825389-chr6:35828910..35831034,3	K562	blood:
3	chr6:35823787..35826457-chr6:35828156..35831044,2	MCF-7	breast:
4	chr6:35824710..35826537-chr6:35841817..35843678,2	K562	blood:
5	chr6:35824538..35827257-chr6:35828919..35831543,3	K562	blood:
6	chr6:35815420..35817910-chr6:35822708..35825554,2	K562	blood:
7	chr6:35822709..35825347-chr6:35846934..35849052,2	K562	blood:

Variant related genes	Relation type
ENSG00000096063	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs12660151	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12663364	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12664440	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12664510	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17707124	1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap]
rs17714205	1.00[ASW][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3430300	chr6:35549151-35959004	Flanking Active TSS Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	esv3363467	chr6:35820920-36222197	Enhancers Strong transcription Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 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	chr6:35787800-35855600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:35799600-35837200	Weak transcription	Fetal Kidney	kidney
3	chr6:35800600-35859000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr6:35801000-35832600	Strong transcription	Fetal Thymus	thymus
5	chr6:35801000-35840600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr6:35801200-35826400	Strong transcription	HUES6 Cell Line	embryonic stem cell
7	chr6:35801200-35837200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr6:35801200-35849000	Strong transcription	Dnd41	blood
9	chr6:35801400-35832400	Strong transcription	HepG2	liver
10	chr6:35801800-35827800	Weak transcription	Brain Substantia Nigra	brain
11	chr6:35801800-35828800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
12	chr6:35803200-35828800	Weak transcription	Pancreas	Pancrea
13	chr6:35804400-35849000	Strong transcription	K562	blood
14	chr6:35806600-35824800	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr6:35806800-35844800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr6:35807000-35860400	Weak transcription	Brain Angular Gyrus	brain
17	chr6:35812200-35825000	Strong transcription	HUES48 Cell Line	embryonic stem cell
18	chr6:35812200-35825200	Strong transcription	Fetal Intestine Large	intestine
19	chr6:35812200-35825400	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr6:35812400-35850200	Weak transcription	Stomach Mucosa	stomach
21	chr6:35812800-35825200	Strong transcription	HMEC	breast
22	chr6:35813400-35833000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr6:35815000-35825600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr6:35815200-35829400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr6:35815600-35824800	Strong transcription	A549	lung
26	chr6:35815600-35831200	Strong transcription	H1 Cell Line	embryonic stem cell
27	chr6:35815800-35840600	Strong transcription	Rectal Mucosa Donor 29	rectum
28	chr6:35816000-35825600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr6:35816000-35831200	Strong transcription	Duodenum Mucosa	Duodenum
30	chr6:35816200-35832400	Strong transcription	Hela-S3	cervix
31	chr6:35816400-35826600	Strong transcription	Placenta	Placenta
32	chr6:35816400-35830200	Strong transcription	Rectal Mucosa Donor 31	rectum
33	chr6:35816600-35829200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr6:35816800-35830200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
35	chr6:35816800-35831600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
36	chr6:35816800-35836400	Weak transcription	Psoas Muscle	Psoas
37	chr6:35816800-35844000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
38	chr6:35817000-35826000	Strong transcription	HUES64 Cell Line	embryonic stem cell
39	chr6:35817000-35826000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
40	chr6:35817000-35828800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr6:35817000-35859000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr6:35817200-35827800	Strong transcription	GM12878-XiMat	blood
43	chr6:35817200-35829000	Weak transcription	Brain Hippocampus Middle	brain
44	chr6:35817400-35826400	Strong transcription	Primary T helper cells fromperipheralblood	blood
45	chr6:35817400-35839200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr6:35817400-35848200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr6:35817600-35825800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr6:35817600-35831000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr6:35818000-35831400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr6:35818600-35825600	Strong transcription	HSMM	muscle

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