Variant report

Variant	rs2401598
Chromosome Location	chr9:100455348-100455349
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:100453377..100456368-chr9:100458057..100460182,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000136936	Chromatin interaction

Extended variants
information (count: 87 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs10512254	0.89[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs16923112	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs16923269	0.84[ASN][1000 genomes]
rs2297155	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2297156	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs2297157	0.87[ASN][1000 genomes]
rs2297158	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2297159	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2297160	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2297161	0.92[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs2401635	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176623	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176624	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176626	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176628	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176629	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176634	0.92[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs3176637	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176638	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176642	0.87[ASN][1000 genomes]
rs3176644	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176645	0.87[ASN][1000 genomes]
rs3176651	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176654	0.87[ASN][1000 genomes]
rs3176659	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176665	0.87[ASN][1000 genomes]
rs3176668	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176669	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176670	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176673	0.87[ASN][1000 genomes]
rs3176675	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176682	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176685	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176688	0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176694	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176698	0.87[ASN][1000 genomes]
rs3176700	0.87[ASN][1000 genomes]
rs3176703	0.87[ASN][1000 genomes]
rs3176708	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176714	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176720	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176721	0.87[ASN][1000 genomes]
rs3176723	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176724	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176726	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176728	0.87[ASN][1000 genomes]
rs3176734	0.87[ASN][1000 genomes]
rs3176735	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176736	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176739	0.87[ASN][1000 genomes]
rs3176740	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176744	0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176746	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176747	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176751	0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3176752	0.87[ASN][1000 genomes]
rs3176758	0.87[ASN][1000 genomes]
rs3176759	0.87[ASN][1000 genomes]
rs56052819	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs56200116	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs57598118	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs57940370	0.87[ASN][1000 genomes]
rs59205756	0.89[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs59354722	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs59775587	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs60463150	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs60821994	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs61208411	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs61440789	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7045160	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs73498377	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs73498380	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs73498381	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs73498394	0.87[ASN][1000 genomes]
rs73500325	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs73500326	0.89[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs73500328	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs73500393	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs73500395	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs73500396	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs73500397	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs73500398	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs73500400	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs73502204	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7850986	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs7862356	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[ASN][1000 genomes]

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	nsv893610	chr9:100324086-100496160	Active TSS Strong transcription Enhancers ZNF genes & repeats Weak transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100401200-100456000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
2	chr9:100402400-100455600	Strong transcription	Dnd41	blood
3	chr9:100402600-100456000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr9:100402600-100456200	Strong transcription	Primary B cells from peripheral blood	blood
5	chr9:100402800-100456000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr9:100404800-100455400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr9:100423000-100456000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr9:100429200-100455600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr9:100429600-100455400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr9:100429600-100455800	Strong transcription	Primary monocytes fromperipheralblood	blood
11	chr9:100429800-100456000	Strong transcription	Monocytes-CD14+_RO01746	blood
12	chr9:100434400-100455600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr9:100437400-100456000	Weak transcription	Pancreatic Islets	Pancreatic Islet
14	chr9:100437600-100455800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr9:100437600-100458400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr9:100438000-100458400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr9:100438400-100457200	Weak transcription	Psoas Muscle	Psoas
18	chr9:100438400-100457400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr9:100438600-100457800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr9:100439000-100458800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr9:100446800-100456800	Weak transcription	Small Intestine	intestine
22	chr9:100446800-100457600	Weak transcription	HUES48 Cell Line	embryonic stem cell
23	chr9:100446800-100457800	Weak transcription	Aorta	Aorta
24	chr9:100447000-100457800	Weak transcription	HUES6 Cell Line	embryonic stem cell
25	chr9:100447200-100456400	Weak transcription	K562	blood
26	chr9:100447200-100457200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
27	chr9:100447200-100457400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
28	chr9:100447200-100458400	Weak transcription	Colonic Mucosa	Colon
29	chr9:100448600-100455800	Strong transcription	Fetal Brain Female	brain
30	chr9:100448600-100455800	Strong transcription	Skeletal Muscle Female	skeletal muscle
31	chr9:100450200-100457000	Weak transcription	HMEC	breast
32	chr9:100451200-100456400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
33	chr9:100451200-100458400	Weak transcription	Esophagus	oesophagus
34	chr9:100451400-100455600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
35	chr9:100451600-100456200	Weak transcription	Brain Angular Gyrus	brain
36	chr9:100451600-100456800	Weak transcription	Stomach Smooth Muscle	stomach
37	chr9:100451600-100458000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr9:100452000-100457800	Weak transcription	Stomach Mucosa	stomach
39	chr9:100452200-100455600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr9:100452400-100456400	Weak transcription	Fetal Heart	heart
41	chr9:100452400-100457000	Weak transcription	NHLF	lung
42	chr9:100452400-100457200	Weak transcription	Muscle Satellite Cultured Cells	--
43	chr9:100452400-100457200	Weak transcription	HSMM	muscle
44	chr9:100452600-100455600	Strong transcription	Primary T cells from cord blood	blood
45	chr9:100452600-100455800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr9:100452600-100457800	Weak transcription	Pancreas	Pancrea
47	chr9:100453200-100456000	Strong transcription	Hela-S3	cervix
48	chr9:100453600-100455800	Weak transcription	A549	lung
49	chr9:100453600-100456800	Weak transcription	Cortex derived primary cultured neurospheres	brain
50	chr9:100453600-100457200	Weak transcription	Primary B cells from cord blood	blood

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