Variant report

Variant	rs2773351
Chromosome Location	chr9:100400134-100400135
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:100399300..100401975-chr9:100415730..100418354,2	MCF-7	breast:
2	chr9:100399646..100402826-chr9:100413871..100416046,3	MCF-7	breast:
3	chr9:100399503..100403011-chr9:100457323..100460203,3	MCF-7	breast:
4	chr9:100399210..100401168-chr9:100434676..100437354,2	K562	blood:
5	chr9:100399371..100401119-chr9:100416169..100418292,2	MCF-7	breast:
6	chr9:100399929..100403095-chr9:100406976..100411224,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000136937	Chromatin interaction
ENSG00000136936	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10983030	1.00[CEU][hapmap];0.96[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10983447	0.85[EUR][1000 genomes]
rs1800975	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2026132	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2036959	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs2149986	0.81[ASN][1000 genomes]
rs2668792	0.93[CEU][hapmap];0.81[EUR][1000 genomes]
rs2668793	0.81[EUR][1000 genomes]
rs2668798	0.85[EUR][1000 genomes]
rs2773347	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2805767	1.00[CEU][hapmap];0.99[EUR][1000 genomes]
rs2805775	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2805777	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs2805779	0.96[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2805791	0.87[ASN][1000 genomes]
rs2805801	0.81[ASN][1000 genomes]
rs2805803	0.85[ASN][1000 genomes]
rs2805806	0.81[ASN][1000 genomes]
rs2805824	0.93[CEU][hapmap];0.81[EUR][1000 genomes]
rs2805825	0.81[EUR][1000 genomes]
rs2805826	0.81[EUR][1000 genomes]
rs2805828	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs2805829	0.88[EUR][1000 genomes]
rs2805832	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2805837	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2805839	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2808668	1.00[CEU][hapmap];0.92[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2808673	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs2808675	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs2808677	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs2808685	0.81[EUR][1000 genomes]
rs2808686	0.92[CEU][hapmap];0.81[EUR][1000 genomes]
rs2808689	0.81[EUR][1000 genomes]
rs2808691	0.81[EUR][1000 genomes]
rs2808703	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6478325	0.98[EUR][1000 genomes]
rs7853179	0.91[JPT][hapmap]
rs913912	0.88[ASN][1000 genomes]
rs958346	0.96[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1039240	chr9:100292680-100415269	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv540179	chr9:100292680-100415269	Genic enhancers Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	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:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100396800-100400600	Weak transcription	Gastric	stomach
2	chr9:100396800-100410200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr9:100397000-100403000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
4	chr9:100397000-100405800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr9:100397000-100409200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr9:100397000-100410200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr9:100397000-100410200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr9:100397000-100411000	Weak transcription	Esophagus	oesophagus
9	chr9:100397200-100400200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
10	chr9:100397200-100405600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr9:100397400-100401600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
12	chr9:100397400-100401800	Enhancers	Primary T killer memory cells from peripheral blood	blood
13	chr9:100397400-100402000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
14	chr9:100397400-100403000	Enhancers	Primary T helper naive cells from peripheral blood	blood
15	chr9:100397600-100400800	Enhancers	Primary T cells from cord blood	blood
16	chr9:100397600-100401200	Enhancers	Breast Myoepithelial Primary Cells	Breast
17	chr9:100397600-100401600	Enhancers	Liver	Liver
18	chr9:100397600-100402000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
19	chr9:100397600-100403000	Weak transcription	Placenta	Placenta
20	chr9:100397600-100403800	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr9:100397600-100405000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr9:100397600-100405400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr9:100397600-100405400	Weak transcription	Fetal Kidney	kidney
24	chr9:100397600-100409800	Weak transcription	Colonic Mucosa	Colon
25	chr9:100397800-100401000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr9:100397800-100405800	Weak transcription	H9 Cell Line	embryonic stem cell
27	chr9:100398000-100400600	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr9:100398000-100403200	Weak transcription	Fetal Muscle Trunk	muscle
29	chr9:100398000-100410200	Weak transcription	Lung	lung
30	chr9:100398000-100418600	Weak transcription	Pancreas	Pancrea
31	chr9:100398400-100400600	Weak transcription	Stomach Smooth Muscle	stomach
32	chr9:100398400-100400600	Genic enhancers	HSMM	muscle
33	chr9:100398400-100401800	Enhancers	A549	lung
34	chr9:100398400-100402400	Enhancers	Primary T helper cells fromperipheralblood	blood
35	chr9:100398400-100402600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr9:100398400-100402600	Weak transcription	Primary B cells from peripheral blood	blood
37	chr9:100398400-100402600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
38	chr9:100398400-100402600	Weak transcription	Fetal Muscle Leg	muscle
39	chr9:100398400-100402800	Weak transcription	Fetal Thymus	thymus
40	chr9:100398400-100402800	Enhancers	HepG2	liver
41	chr9:100398400-100403000	Weak transcription	Primary monocytes fromperipheralblood	blood
42	chr9:100398400-100403200	Weak transcription	Primary T cells fromperipheralblood	blood
43	chr9:100398400-100403400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr9:100398400-100403400	Weak transcription	HMEC	breast
45	chr9:100398400-100403800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
46	chr9:100398400-100403800	Weak transcription	Fetal Intestine Large	intestine
47	chr9:100398400-100404400	Weak transcription	Primary neutrophils fromperipheralblood	blood
48	chr9:100398400-100405400	Weak transcription	Placenta Amnion	Placenta Amnion
49	chr9:100398400-100405600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
50	chr9:100398400-100410200	Weak transcription	Fetal Intestine Small	intestine

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