Variant report

Variant	rs9470800
Chromosome Location	chr6:38119399-38119400
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10755700	0.92[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs1885325	0.91[CHB][hapmap];1.00[JPT][hapmap];0.92[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs1923279	0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.96[ASN][1000 genomes]
rs2201646	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs4506034	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4711522	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs4711523	0.86[CEU][hapmap]
rs4714123	0.81[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs4714125	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6458040	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs6458042	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6916091	0.96[ASN][1000 genomes]
rs6917668	1.00[YRI][hapmap]
rs6924634	0.91[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs6929371	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6930859	0.95[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6936504	0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.82[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs6938580	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs7751390	0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7765798	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap]
rs881681	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9349053	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs9369029	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs9369033	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs9380716	0.91[AFR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9394471	0.80[EUR][1000 genomes]
rs9462374	0.96[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs9462380	0.95[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9470762	0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs9470767	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 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	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
3	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
4	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
5	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
6	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
7	nsv524213	chr6:38106844-38160627	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38081800-38121800	Weak transcription	Psoas Muscle	Psoas
2	chr6:38084000-38122200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
3	chr6:38084600-38124200	Weak transcription	Hela-S3	cervix
4	chr6:38091200-38119800	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr6:38091400-38141800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr6:38095200-38122600	Weak transcription	A549	lung
7	chr6:38099800-38119600	Weak transcription	Aorta	Aorta
8	chr6:38103000-38127200	Weak transcription	Colon Smooth Muscle	Colon
9	chr6:38104600-38119600	Weak transcription	Gastric	stomach
10	chr6:38104600-38119600	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr6:38109200-38123000	Weak transcription	Ovary	ovary
12	chr6:38109200-38129000	Weak transcription	Rectal Smooth Muscle	rectum
13	chr6:38110200-38122200	Weak transcription	HUVEC	blood vessel
14	chr6:38111200-38119800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr6:38111200-38122400	Weak transcription	Primary hematopoietic stem cells	blood
16	chr6:38111800-38119600	Weak transcription	HSMMtube	muscle
17	chr6:38111800-38119800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr6:38111800-38120000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr6:38111800-38138200	Weak transcription	Fetal Brain Female	brain
20	chr6:38112400-38128400	Weak transcription	Brain Germinal Matrix	brain
21	chr6:38112400-38138200	Weak transcription	Fetal Brain Male	brain
22	chr6:38112800-38121200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr6:38113000-38121000	Weak transcription	HUES48 Cell Line	embryonic stem cell
24	chr6:38113000-38127800	Weak transcription	H9 Cell Line	embryonic stem cell
25	chr6:38113200-38119600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr6:38113200-38134400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr6:38113200-38138000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
28	chr6:38113400-38119800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
29	chr6:38113800-38120600	Weak transcription	Primary B cells from cord blood	blood
30	chr6:38114200-38119600	Weak transcription	Placenta Amnion	Placenta Amnion
31	chr6:38114400-38138200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
32	chr6:38114600-38119600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr6:38114600-38119600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr6:38114600-38119600	Weak transcription	Skeletal Muscle Female	skeletal muscle
35	chr6:38114600-38119800	Weak transcription	Osteobl	bone
36	chr6:38114600-38121400	Weak transcription	Brain Inferior Temporal Lobe	brain
37	chr6:38114600-38122600	Weak transcription	HMEC	breast
38	chr6:38114600-38123000	Weak transcription	Brain Substantia Nigra	brain
39	chr6:38114600-38123000	Weak transcription	NH-A	brain
40	chr6:38114600-38127200	Weak transcription	HSMM	muscle
41	chr6:38115200-38123200	Weak transcription	Muscle Satellite Cultured Cells	--
42	chr6:38115200-38123200	Weak transcription	Brain Angular Gyrus	brain
43	chr6:38115200-38123200	Weak transcription	Brain Hippocampus Middle	brain
44	chr6:38115400-38119800	Weak transcription	Brain Anterior Caudate	brain
45	chr6:38115800-38121800	Strong transcription	Monocytes-CD14+_RO01746	blood
46	chr6:38115800-38122800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
47	chr6:38116000-38121000	Strong transcription	Primary T cells fromperipheralblood	blood
48	chr6:38116000-38123400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr6:38116200-38120200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
50	chr6:38116200-38120800	Strong transcription	Primary B cells from peripheral blood	blood

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