Variant report

Variant	rs13200744
Chromosome Location	chr6:161449576-161449577
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:161446925..161450155-chr6:161452719..161457291,6	K562	blood:
2	chr6:161447520..161449866-chr6:161453446..161455533,2	K562	blood:
3	chr6:161429995..161433253-chr6:161449573..161453041,3	MCF-7	breast:
4	chr6:161439053..161441758-chr6:161448049..161449649,2	K562	blood:

Variant related genes	Relation type
ENSG00000085511	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs12174748	0.93[EUR][1000 genomes]
rs12203648	0.84[CHB][hapmap]
rs12665456	1.00[CEU][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13206391	0.93[EUR][1000 genomes]
rs13209847	0.97[EUR][1000 genomes]
rs1562027	0.95[CHB][hapmap];0.86[ASN][1000 genomes]
rs35894036	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3734461	0.94[CHB][hapmap];0.90[ASN][1000 genomes]
rs3736569	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs3778219	1.00[CEU][hapmap];0.88[GIH][hapmap];0.85[TSI][hapmap];0.93[EUR][1000 genomes]
rs3798907	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3798910	0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3798912	0.97[EUR][1000 genomes]
rs3798913	0.97[EUR][1000 genomes]
rs4709485	0.83[CHB][hapmap]
rs588284	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs589238	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs590988	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs593184	1.00[AMR][1000 genomes]
rs594555	0.81[CHB][hapmap]
rs594602	0.84[CHB][hapmap]
rs619831	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs628075	1.00[CEU][hapmap];0.84[CHB][hapmap];0.97[EUR][1000 genomes]
rs630006	0.84[CHB][hapmap]
rs630430	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs643706	1.00[CEU][hapmap];0.89[CHB][hapmap];0.97[EUR][1000 genomes]
rs644110	0.84[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.87[TSI][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs645406	0.84[CHB][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs655382	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs657616	1.00[CEU][hapmap];0.84[CHB][hapmap];0.90[EUR][1000 genomes]
rs674220	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs685939	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs686392	0.97[EUR][1000 genomes]
rs686755	0.97[EUR][1000 genomes]
rs6901173	0.84[CHB][hapmap]
rs6901968	0.84[CHB][hapmap]
rs6913867	0.84[CHB][hapmap]
rs71565787	0.83[EUR][1000 genomes]
rs71565788	0.93[EUR][1000 genomes]
rs7756711	0.84[CHB][hapmap]
rs787784	0.97[EUR][1000 genomes]
rs796835	0.83[EUR][1000 genomes]
rs9295134	0.95[CHB][hapmap];0.86[CHD][hapmap];0.89[ASN][1000 genomes]
rs9347478	0.84[CHB][hapmap]
rs9355327	0.83[CHB][hapmap]
rs9355861	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs9364587	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs9365249	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs9365251	0.93[EUR][1000 genomes]
rs9458102	0.94[CHB][hapmap];0.89[ASN][1000 genomes]
rs9458114	1.00[GIH][hapmap];1.00[MEX][hapmap];0.87[TSI][hapmap];0.80[EUR][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	nsv1030045	chr6:161359075-161562255	Enhancers Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv886817	chr6:161371621-161846654	Strong transcription Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	esv3381361	chr6:161373617-161864101	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
4	nsv1023982	chr6:161382188-161549831	Enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:161414200-161458200	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr6:161414400-161469600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr6:161414600-161457400	Weak transcription	Primary hematopoietic stem cells	blood
4	chr6:161415600-161450000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
5	chr6:161416600-161475200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr6:161428600-161455800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr6:161432200-161450000	Weak transcription	HMEC	breast
8	chr6:161432200-161450400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr6:161432200-161451200	Weak transcription	NHEK	skin
10	chr6:161432600-161455400	Weak transcription	Fetal Intestine Large	intestine
11	chr6:161433000-161458000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr6:161433200-161450000	Weak transcription	Aorta	Aorta
13	chr6:161433200-161459200	Weak transcription	Fetal Stomach	stomach
14	chr6:161433400-161450000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr6:161433400-161455600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr6:161433400-161455800	Weak transcription	Fetal Muscle Leg	muscle
17	chr6:161433400-161455800	Weak transcription	Stomach Smooth Muscle	stomach
18	chr6:161433400-161459000	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr6:161433600-161458200	Weak transcription	Fetal Brain Female	brain
20	chr6:161433600-161459600	Weak transcription	Brain Germinal Matrix	brain
21	chr6:161433800-161451000	Weak transcription	Primary T helper cells fromperipheralblood	blood
22	chr6:161434000-161449800	Weak transcription	Duodenum Smooth Muscle	Duodenum
23	chr6:161434000-161455600	Weak transcription	Adipose Nuclei	Adipose
24	chr6:161434000-161459000	Weak transcription	Brain Hippocampus Middle	brain
25	chr6:161434200-161450000	Weak transcription	Primary B cells from peripheral blood	blood
26	chr6:161434800-161458200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
27	chr6:161435000-161449600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr6:161435000-161452200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr6:161435000-161458000	Weak transcription	Fetal Muscle Trunk	muscle
30	chr6:161435000-161458800	Weak transcription	Duodenum Mucosa	Duodenum
31	chr6:161435000-161490400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr6:161435200-161450400	Weak transcription	Primary neutrophils fromperipheralblood	blood
33	chr6:161435200-161454800	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr6:161435200-161455800	Weak transcription	HUES6 Cell Line	embryonic stem cell
35	chr6:161435400-161450400	Weak transcription	HUES48 Cell Line	embryonic stem cell
36	chr6:161436800-161455600	Weak transcription	Sigmoid Colon	Sigmoid Colon
37	chr6:161437000-161451200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
38	chr6:161437000-161451600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr6:161437000-161452800	Weak transcription	Primary T cells from cord blood	blood
40	chr6:161437400-161457600	Weak transcription	Liver	Liver
41	chr6:161437800-161449800	Weak transcription	Colon Smooth Muscle	Colon
42	chr6:161437800-161451200	Weak transcription	Rectal Smooth Muscle	rectum
43	chr6:161438000-161452400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr6:161439000-161454800	Weak transcription	Dnd41	blood
45	chr6:161439200-161458800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
46	chr6:161439600-161449800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
47	chr6:161440200-161459200	Weak transcription	Placenta	Placenta
48	chr6:161440600-161459600	Weak transcription	Esophagus	oesophagus
49	chr6:161441200-161459800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
50	chr6:161442400-161450400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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