Variant report

Variant	rs9468118
Chromosome Location	chr6:27370554-27370555
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:27360610..27362921-chr6:27368248..27371052,2	MCF-7	breast:
2	chr6:27363554..27367371-chr6:27369337..27372451,5	K562	blood:
3	chr6:27355079..27357819-chr6:27369323..27370983,2	K562	blood:
4	chr6:27368618..27370867-chr6:27411111..27412908,2	K562	blood:
5	chr6:27363318..27368170-chr6:27368582..27372451,5	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PRSS16-5	chr6:27369662-27371681	NONHSAT108382

Variant related genes	Relation type
ENSG00000124613	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10080563	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10080564	0.93[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41269263	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9295737	1.00[ASN][1000 genomes]
rs9461361	1.00[AMR][1000 genomes]
rs9461364	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9461368	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9461369	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9461385	1.00[ASN][1000 genomes]
rs9461388	0.86[EUR][1000 genomes]
rs9468070	1.00[AMR][1000 genomes]
rs9468071	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468074	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468077	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468081	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468094	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468120	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468127	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468128	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468132	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9468137	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9468143	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9468144	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9468175	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948921	chr6:26556890-27443957	Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS Enhancers Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	472 gene(s)	inside rSNPs	diseases
2	nsv1031803	chr6:27355881-27423655	Active TSS Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv538166	chr6:27355881-27423655	Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv5235	chr6:27358498-27404074	ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:27359600-27371200	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr6:27359600-27372200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr6:27360000-27371400	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
4	chr6:27360600-27370800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr6:27363000-27372200	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr6:27364000-27370800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr6:27364800-27370600	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
8	chr6:27365800-27370800	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
9	chr6:27366600-27370600	ZNF genes & repeats	Ovary	ovary
10	chr6:27367400-27372200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr6:27367800-27371200	ZNF genes & repeats	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr6:27369000-27370800	Weak transcription	Fetal Kidney	kidney
13	chr6:27369000-27376600	Weak transcription	Brain Cingulate Gyrus	brain
14	chr6:27369200-27371000	Weak transcription	Brain Anterior Caudate	brain
15	chr6:27369200-27372600	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr6:27369200-27382000	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr6:27369600-27370600	ZNF genes & repeats	Fetal Stomach	stomach
18	chr6:27369600-27372600	Weak transcription	Fetal Brain Male	brain
19	chr6:27369600-27374200	Weak transcription	Fetal Muscle Trunk	muscle
20	chr6:27369800-27370800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr6:27369800-27371000	Weak transcription	Dnd41	blood
22	chr6:27369800-27371400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr6:27369800-27371400	Weak transcription	Brain Germinal Matrix	brain
24	chr6:27369800-27372600	Weak transcription	Brain Hippocampus Middle	brain
25	chr6:27370000-27370800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
26	chr6:27370400-27370600	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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