Variant report

Variant	rs16888605
Chromosome Location	chr6:36433408-36433409
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:36430968..36434013-chr6:36434233..36437911,3	MCF-7	breast:
2	chr6:36433273..36435702-chr6:36560316..36563081,3	K562	blood:
3	chr6:36420006..36423129-chr6:36431937..36434628,3	K562	blood:

Variant related genes	Relation type
ENSG00000112081	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs12525802	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16888788	0.86[CHB][hapmap];0.86[JPT][hapmap]
rs16888791	0.87[CEU][hapmap];0.93[CHB][hapmap];0.96[CHD][hapmap];0.88[JPT][hapmap];0.94[TSI][hapmap]
rs1744653	0.86[CHB][hapmap];0.84[ASN][1000 genomes]
rs2104219	0.87[CEU][hapmap];0.93[CHB][hapmap];0.88[JPT][hapmap]
rs2239541	0.80[ASN][1000 genomes]
rs2267930	0.86[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs2273882	0.86[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs2395653	0.87[CEU][hapmap];0.93[CHB][hapmap];0.96[CHD][hapmap];0.88[JPT][hapmap];0.94[TSI][hapmap]
rs3819759	0.80[ASN][1000 genomes]
rs41272166	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4236051	0.86[CHB][hapmap];0.96[CHD][hapmap];0.86[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs4711451	0.87[ASN][1000 genomes]
rs4713975	1.00[ASW][hapmap];1.00[CEU][hapmap];0.86[CHB][hapmap];0.96[CHD][hapmap];0.84[GIH][hapmap];0.88[JPT][hapmap];0.91[LWK][hapmap];0.82[MEX][hapmap];1.00[MKK][hapmap];0.94[TSI][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4713976	0.87[ASN][1000 genomes]
rs4713977	0.87[ASN][1000 genomes]
rs4713978	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6457930	0.87[CEU][hapmap];0.91[CHB][hapmap];0.85[JPT][hapmap]
rs7741260	0.86[CHB][hapmap];0.84[ASN][1000 genomes]
rs7741729	0.93[CHB][hapmap];0.88[CHD][hapmap]
rs7762777	1.00[CEU][hapmap];0.82[CHB][hapmap]
rs7762785	0.86[CEU][hapmap];0.81[CHB][hapmap];0.88[JPT][hapmap]
rs9800473	1.00[JPT][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv885806	chr6:36349890-36621178	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	103 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36411600-36439800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr6:36411600-36476400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:36411800-36439400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr6:36412200-36449200	Weak transcription	Esophagus	oesophagus
5	chr6:36412400-36437800	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr6:36412400-36438400	Weak transcription	Lung	lung
7	chr6:36412600-36438600	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr6:36412600-36439200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr6:36412600-36449000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr6:36412800-36443400	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr6:36412800-36447000	Weak transcription	Brain Cingulate Gyrus	brain
12	chr6:36412800-36448600	Weak transcription	HMEC	breast
13	chr6:36413400-36437800	Weak transcription	Primary B cells from peripheral blood	blood
14	chr6:36413400-36439200	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr6:36413600-36437800	Weak transcription	Duodenum Mucosa	Duodenum
16	chr6:36413800-36436800	Weak transcription	Fetal Lung	lung
17	chr6:36417000-36436400	Weak transcription	HSMM	muscle
18	chr6:36417000-36438400	Weak transcription	Fetal Brain Female	brain
19	chr6:36417200-36438800	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr6:36417200-36439000	Weak transcription	HUES6 Cell Line	embryonic stem cell
21	chr6:36417200-36439200	Weak transcription	Brain Anterior Caudate	brain
22	chr6:36417600-36434200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr6:36417600-36439200	Weak transcription	Spleen	Spleen
24	chr6:36418400-36438400	Weak transcription	Primary neutrophils fromperipheralblood	blood
25	chr6:36419000-36449200	Weak transcription	Pancreas	Pancrea
26	chr6:36420600-36437800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr6:36421000-36438200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr6:36421600-36437800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr6:36422000-36438400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr6:36422800-36438400	Weak transcription	Thymus	Thymus
31	chr6:36423000-36437800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
32	chr6:36423000-36449400	Weak transcription	Gastric	stomach
33	chr6:36423200-36437800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr6:36423400-36449600	Weak transcription	Stomach Mucosa	stomach
35	chr6:36423600-36437800	Weak transcription	Right Ventricle	heart
36	chr6:36423600-36438000	Weak transcription	Fetal Intestine Large	intestine
37	chr6:36423600-36438000	Weak transcription	Placenta	Placenta
38	chr6:36423800-36437800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr6:36423800-36437800	Weak transcription	Fetal Muscle Trunk	muscle
40	chr6:36424000-36437000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr6:36424000-36437800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr6:36424000-36438000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr6:36424600-36437000	Weak transcription	Dnd41	blood
44	chr6:36424800-36439200	Weak transcription	Left Ventricle	heart
45	chr6:36425000-36437800	Weak transcription	Fetal Stomach	stomach
46	chr6:36425400-36437800	Weak transcription	Fetal Muscle Leg	muscle
47	chr6:36425600-36437800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
48	chr6:36427600-36437200	Weak transcription	HepG2	liver
49	chr6:36427600-36437600	Weak transcription	Hela-S3	cervix
50	chr6:36427600-36437800	Weak transcription	Liver	Liver

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