Variant report

Variant	rs16890365
Chromosome Location	chr6:38077912-38077913
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:38072823..38074377-chr6:38076432..38078793,2	K562	blood:

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs13195333	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13198459	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs13203867	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap]
rs13212369	0.93[AFR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13217630	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs13219500	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap]
rs16890301	0.82[ASW][hapmap];0.87[CEU][hapmap];0.82[LWK][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.94[YRI][hapmap]
rs2395689	0.87[CEU][hapmap];1.00[TSI][hapmap]
rs2453882	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2645096	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2645098	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2645104	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs2645115	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2645126	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs28360531	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2842499	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2842514	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2842516	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2842524	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs34038972	0.94[AFR][1000 genomes];0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs34054123	0.81[AMR][1000 genomes]
rs34123707	0.82[AFR][1000 genomes]
rs34406273	0.86[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs34754573	0.82[AFR][1000 genomes]
rs35202194	0.81[AFR][1000 genomes]
rs35549511	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35559973	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35597126	0.89[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs35815938	0.89[AFR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4394213	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap]
rs4711518	1.00[CHB][hapmap];0.82[JPT][hapmap];1.00[TSI][hapmap]
rs6458037	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs6908761	0.90[ASW][hapmap];0.87[CEU][hapmap];1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.94[YRI][hapmap];0.81[AFR][1000 genomes]
rs6916057	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.93[AFR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6916535	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6917208	0.90[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.94[YRI][hapmap];0.89[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs6921475	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6923132	0.90[ASW][hapmap];0.87[CEU][hapmap];1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.94[YRI][hapmap]
rs6923254	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap]
rs6925563	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs6940491	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs71571304	0.90[AFR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7740636	0.89[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs7766767	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7776025	0.90[ASW][hapmap];0.87[CEU][hapmap];1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.94[YRI][hapmap]
rs9296236	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028825	chr6:37495154-38278320	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1017051	chr6:37789341-38084719	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv538203	chr6:37789341-38084719	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1020625	chr6:37833591-38155622	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
5	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
6	esv2754649	chr6:37985025-38147910	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
7	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
8	nsv534620	chr6:38049585-38602064	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38030800-38085800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
2	chr6:38035000-38084000	Weak transcription	Stomach Smooth Muscle	stomach
3	chr6:38045600-38107000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr6:38045800-38079800	Weak transcription	HUES6 Cell Line	embryonic stem cell
5	chr6:38046000-38084200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr6:38049400-38084400	Weak transcription	Hela-S3	cervix
7	chr6:38051600-38078200	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr6:38052800-38083800	Weak transcription	Primary hematopoietic stem cells	blood
9	chr6:38052800-38084000	Weak transcription	Dnd41	blood
10	chr6:38053000-38078200	Weak transcription	Fetal Intestine Large	intestine
11	chr6:38053000-38084000	Weak transcription	Fetal Muscle Trunk	muscle
12	chr6:38053000-38090400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr6:38053200-38078200	Weak transcription	Fetal Thymus	thymus
14	chr6:38053200-38078200	Weak transcription	Rectal Mucosa Donor 29	rectum
15	chr6:38053200-38080000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr6:38053200-38084000	Weak transcription	Primary T helper cells fromperipheralblood	blood
17	chr6:38054200-38080000	Weak transcription	Psoas Muscle	Psoas
18	chr6:38054400-38084000	Weak transcription	Primary T cells fromperipheralblood	blood
19	chr6:38054600-38084000	Weak transcription	Primary T helper cells PMA-I stimulated	--
20	chr6:38055600-38084400	Weak transcription	Adipose Nuclei	Adipose
21	chr6:38055800-38084200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr6:38057200-38109200	Weak transcription	K562	blood
23	chr6:38059800-38091600	Weak transcription	Spleen	Spleen
24	chr6:38060000-38092000	Weak transcription	Aorta	Aorta
25	chr6:38060000-38099400	Weak transcription	Right Ventricle	heart
26	chr6:38060000-38108200	Weak transcription	Ovary	ovary
27	chr6:38060200-38078200	Weak transcription	Brain Inferior Temporal Lobe	brain
28	chr6:38060600-38078400	Weak transcription	Brain Angular Gyrus	brain
29	chr6:38061200-38078000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr6:38061600-38078200	Weak transcription	Brain Hippocampus Middle	brain
31	chr6:38063400-38078000	Weak transcription	HSMMtube	muscle
32	chr6:38063400-38083600	Weak transcription	HepG2	liver
33	chr6:38063400-38085600	Weak transcription	A549	lung
34	chr6:38063600-38078200	Weak transcription	HSMM	muscle
35	chr6:38063600-38078800	Weak transcription	Osteobl	bone
36	chr6:38063800-38078200	Weak transcription	Muscle Satellite Cultured Cells	--
37	chr6:38063800-38078400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr6:38063800-38078400	Weak transcription	NHDF-Ad	bronchial
39	chr6:38063800-38099000	Weak transcription	NH-A	brain
40	chr6:38067600-38078400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr6:38068400-38083800	Weak transcription	Primary B cells from peripheral blood	blood
42	chr6:38068400-38083800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
43	chr6:38068600-38084200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
44	chr6:38068800-38078400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr6:38069200-38078400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr6:38071600-38078200	Weak transcription	Rectal Smooth Muscle	rectum
47	chr6:38071800-38078200	Weak transcription	Duodenum Smooth Muscle	Duodenum
48	chr6:38071800-38091400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
49	chr6:38072000-38078400	Weak transcription	Esophagus	oesophagus
50	chr6:38072000-38085400	Weak transcription	GM12878-XiMat	blood

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