Variant report

Variant	rs16920477
Chromosome Location	chr9:104302625-104302626
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	chr9:104302143..104304850-chr9:104306401..104308642,2	K562	blood:

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs11793946	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs13287159	1.00[AFR][1000 genomes]
rs13289614	1.00[AFR][1000 genomes]
rs13292935	1.00[AFR][1000 genomes]
rs16920437	0.81[ASN][1000 genomes]
rs16920441	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs16920487	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs16920497	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs16920501	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1929483	0.81[ASN][1000 genomes]
rs2181561	1.00[AFR][1000 genomes]
rs2417270	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs2417271	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs28411396	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35320813	1.00[AFR][1000 genomes]
rs35698290	1.00[AFR][1000 genomes]
rs35778437	1.00[AFR][1000 genomes]
rs36074111	1.00[AFR][1000 genomes]
rs3813523	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs41282149	1.00[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs41282153	1.00[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs41282155	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs41306471	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs45587135	0.94[ASN][1000 genomes]
rs56742090	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs56998622	0.81[ASN][1000 genomes]
rs59048832	0.89[AMR][1000 genomes]
rs61437380	0.89[AMR][1000 genomes]
rs62000403	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs62575836	1.00[ASN][1000 genomes]
rs62575837	1.00[ASN][1000 genomes]
rs71509736	1.00[AFR][1000 genomes]
rs72745305	1.00[ASN][1000 genomes]
rs73659558	0.84[AMR][1000 genomes]
rs7859863	0.88[ASN][1000 genomes]
rs7872953	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7873986	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9792479	0.86[AMR][1000 genomes]
rs9792648	0.80[MEX][hapmap];1.00[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs989900	1.00[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs989901	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046975	chr9:104167583-104659873	Weak transcription Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats 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
2	nsv893626	chr9:104172936-104324545	Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv949579	chr9:104229820-104512923	Genic enhancers Enhancers Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
4	nsv1052492	chr9:104263419-104387782	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats 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	7 gene(s)	inside rSNPs	diseases
5	nsv893627	chr9:104268342-104334333	Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
6	nsv831672	chr9:104300755-104480849	Weak transcription Strong transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:104296800-104302800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr9:104296800-104302800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr9:104296800-104305800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr9:104296800-104334200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr9:104296800-104337400	Weak transcription	Stomach Mucosa	stomach
6	chr9:104297000-104302800	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr9:104297000-104302800	Weak transcription	HSMMtube	muscle
8	chr9:104297000-104309200	Weak transcription	HUVEC	blood vessel
9	chr9:104297000-104317600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr9:104297200-104302800	Weak transcription	Fetal Intestine Small	intestine
11	chr9:104297200-104309200	Weak transcription	K562	blood
12	chr9:104297600-104302800	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr9:104297600-104304600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr9:104297600-104306000	Strong transcription	HUES6 Cell Line	embryonic stem cell
15	chr9:104297600-104321200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
16	chr9:104297600-104330400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr9:104297600-104330400	Strong transcription	HUES64 Cell Line	embryonic stem cell
18	chr9:104297800-104303800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr9:104297800-104303800	Strong transcription	Fetal Muscle Leg	muscle
20	chr9:104297800-104304800	Strong transcription	Fetal Lung	lung
21	chr9:104297800-104305800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
22	chr9:104297800-104311400	Strong transcription	HUES48 Cell Line	embryonic stem cell
23	chr9:104297800-104317400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr9:104297800-104318400	Strong transcription	Rectal Mucosa Donor 29	rectum
25	chr9:104297800-104320400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr9:104297800-104320400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr9:104297800-104325400	Strong transcription	Duodenum Mucosa	Duodenum
28	chr9:104297800-104332600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr9:104297800-104333000	Strong transcription	Primary monocytes fromperipheralblood	blood
30	chr9:104298000-104304200	Strong transcription	Fetal Thymus	thymus
31	chr9:104298000-104332800	Strong transcription	Primary B cells from peripheral blood	blood
32	chr9:104298200-104304000	Strong transcription	Dnd41	blood
33	chr9:104298200-104311200	Strong transcription	Primary B cells from cord blood	blood
34	chr9:104298200-104328200	Strong transcription	Rectal Mucosa Donor 31	rectum
35	chr9:104298200-104333200	Strong transcription	Adipose Nuclei	Adipose
36	chr9:104298400-104303600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr9:104298400-104312800	Weak transcription	Small Intestine	intestine
38	chr9:104298400-104320000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr9:104298400-104333200	Strong transcription	Liver	Liver
40	chr9:104298400-104333400	Strong transcription	Monocytes-CD14+_RO01746	blood
41	chr9:104298600-104325000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr9:104298800-104303800	Strong transcription	Primary T cells from cord blood	blood
43	chr9:104298800-104307400	Weak transcription	Fetal Brain Male	brain
44	chr9:104298800-104317600	Strong transcription	Primary hematopoietic stem cells	blood
45	chr9:104299000-104303800	Strong transcription	Stomach Smooth Muscle	stomach
46	chr9:104299000-104333000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr9:104299200-104303800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
48	chr9:104299200-104305200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr9:104299200-104324200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr9:104299200-104330400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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