Variant report

Variant	rs1883878
Chromosome Location	chr6:80382916-80382917
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:80382117..80383006-chr6:80423457..80424018,2	MCF-7	breast:
2	chr6:80382482..80385735-chr6:80395267..80398943,4	K562	blood:
3	chr6:80279995..80281714-chr6:80381655..80383225,21	MCF-7	breast:
4	chr6:80375563..80378458-chr6:80382282..80385126,3	K562	blood:
5	chr6:80280191..80281527-chr6:80382018..80383050,5	K562	blood:

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs1009742	0.85[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2235880	0.91[ASW][hapmap];0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap];0.85[MEX][hapmap];0.93[MKK][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs2473826	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2746314	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];0.97[TSI][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2746316	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2746317	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2812701	0.84[YRI][hapmap];0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2812703	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2812708	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2812712	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.97[TSI][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2812713	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6927296	0.86[JPT][hapmap]
rs980225	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][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	nsv1028607	chr6:79853272-80767716	Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv1018318	chr6:80241029-80465282	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
3	nsv1032347	chr6:80284809-80694778	Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:80366200-80384000	Weak transcription	Brain Germinal Matrix	brain
2	chr6:80373400-80412400	Weak transcription	Fetal Brain Male	brain
3	chr6:80374400-80383600	Weak transcription	Right Ventricle	heart
4	chr6:80374400-80386800	Weak transcription	Right Atrium	heart
5	chr6:80375800-80383600	Weak transcription	Fetal Kidney	kidney
6	chr6:80376000-80385000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr6:80376200-80384200	Weak transcription	Brain Angular Gyrus	brain
8	chr6:80376400-80396200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr6:80376400-80402000	Weak transcription	Brain Substantia Nigra	brain
10	chr6:80376600-80383200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr6:80377000-80385800	Weak transcription	Fetal Muscle Leg	muscle
12	chr6:80378000-80394400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
13	chr6:80378200-80383000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr6:80378200-80385600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr6:80378200-80387000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr6:80378200-80396000	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr6:80378200-80405000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr6:80378400-80383400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr6:80378400-80383400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
20	chr6:80378400-80385600	Weak transcription	Skeletal Muscle Male	skeletal muscle
21	chr6:80378400-80403800	Weak transcription	Esophagus	oesophagus
22	chr6:80378600-80383400	Weak transcription	Adipose Nuclei	Adipose
23	chr6:80379000-80383800	Enhancers	Fetal Intestine Small	intestine
24	chr6:80379600-80383800	Enhancers	HepG2	liver
25	chr6:80380600-80384800	Weak transcription	Colonic Mucosa	Colon
26	chr6:80380800-80383400	Weak transcription	HUES64 Cell Line	embryonic stem cell
27	chr6:80381000-80386800	Weak transcription	Gastric	stomach
28	chr6:80381200-80390000	Weak transcription	Rectal Smooth Muscle	rectum
29	chr6:80381600-80383200	Weak transcription	Brain Anterior Caudate	brain
30	chr6:80381600-80383400	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr6:80381600-80386000	Weak transcription	Lung	lung
32	chr6:80381600-80386600	Weak transcription	Pancreas	Pancrea
33	chr6:80381600-80386800	Weak transcription	Psoas Muscle	Psoas
34	chr6:80381600-80387000	Weak transcription	Colon Smooth Muscle	Colon
35	chr6:80381600-80387200	Weak transcription	Left Ventricle	heart
36	chr6:80381600-80387200	Weak transcription	Ovary	ovary
37	chr6:80381600-80388600	Weak transcription	Skeletal Muscle Female	skeletal muscle
38	chr6:80381600-80390400	Weak transcription	Primary hematopoietic stem cells	blood
39	chr6:80381600-80396400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr6:80381600-80400600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
41	chr6:80381600-80408200	Weak transcription	Fetal Stomach	stomach
42	chr6:80381800-80383000	Weak transcription	Brain Hippocampus Middle	brain
43	chr6:80381800-80383400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
44	chr6:80381800-80383600	Weak transcription	Stomach Smooth Muscle	stomach
45	chr6:80381800-80384200	Weak transcription	Fetal Brain Female	brain
46	chr6:80381800-80387000	Weak transcription	Brain Cingulate Gyrus	brain
47	chr6:80381800-80395800	Weak transcription	Placenta Amnion	Placenta Amnion
48	chr6:80382000-80383400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
49	chr6:80382000-80394200	Weak transcription	Small Intestine	intestine
50	chr6:80382200-80383400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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