Variant report

Variant	rs73498323
Chromosome Location	chr9:100401573-100401574
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:100401438..100403193-chr9:100429203..100431523,2	MCF-7	breast:
2	chr9:100399300..100401975-chr9:100415730..100418354,2	MCF-7	breast:
3	chr9:100399646..100402826-chr9:100413871..100416046,3	MCF-7	breast:
4	chr9:100399503..100403011-chr9:100457323..100460203,3	MCF-7	breast:
5	chr9:100159820..100162414-chr9:100401342..100403835,2	MCF-7	breast:
6	chr9:100399929..100403095-chr9:100406976..100411224,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000136936	Chromatin interaction

Extended variants
information (count: 86 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs1034098	0.83[AFR][1000 genomes]
rs1116208	0.83[AFR][1000 genomes]
rs14066	0.83[AFR][1000 genomes]
rs1411344	0.83[AFR][1000 genomes]
rs1543636	0.85[AFR][1000 genomes]
rs16923033	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16923041	0.85[AFR][1000 genomes]
rs1813875	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1928641	0.83[AFR][1000 genomes]
rs1928642	0.83[AFR][1000 genomes]
rs2282066	0.82[AFR][1000 genomes]
rs2282067	0.85[AFR][1000 genomes]
rs28403588	0.82[AFR][1000 genomes]
rs28403589	0.83[AFR][1000 genomes]
rs3176635	0.92[AFR][1000 genomes]
rs3176657	0.89[AFR][1000 genomes]
rs3176687	0.93[AFR][1000 genomes]
rs3176706	0.93[AFR][1000 genomes]
rs3176711	0.93[AFR][1000 genomes]
rs3176712	0.93[AFR][1000 genomes]
rs3750370	0.83[AFR][1000 genomes]
rs3802472	0.83[AFR][1000 genomes]
rs3802473	0.83[AFR][1000 genomes]
rs3802474	0.83[AFR][1000 genomes]
rs41274252	0.83[AFR][1000 genomes]
rs55966848	0.85[AFR][1000 genomes]
rs56060429	0.85[AFR][1000 genomes]
rs58146508	0.85[AFR][1000 genomes]
rs58387091	0.83[AFR][1000 genomes]
rs58390229	0.80[AFR][1000 genomes]
rs58637778	0.84[AFR][1000 genomes]
rs58878935	0.86[AFR][1000 genomes]
rs59478543	0.81[AFR][1000 genomes]
rs59662386	0.85[AFR][1000 genomes]
rs59791764	0.85[AFR][1000 genomes]
rs59992945	0.83[AFR][1000 genomes]
rs60026475	0.84[AFR][1000 genomes]
rs60028882	0.83[AFR][1000 genomes]
rs60055057	0.85[AFR][1000 genomes]
rs60596698	0.83[AFR][1000 genomes]
rs60653177	0.83[AFR][1000 genomes]
rs61221847	0.85[AFR][1000 genomes]
rs61276200	0.85[AFR][1000 genomes]
rs61445476	0.85[AFR][1000 genomes]
rs61739366	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6478304	0.83[AFR][1000 genomes]
rs6478305	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7018546	0.85[AFR][1000 genomes]
rs7021377	0.93[AFR][1000 genomes]
rs7025403	0.83[AFR][1000 genomes]
rs7036604	0.82[AFR][1000 genomes]
rs7049183	0.85[AFR][1000 genomes]
rs7341850	0.85[AFR][1000 genomes]
rs73498324	0.86[AFR][1000 genomes]
rs73498329	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73498332	0.85[AFR][1000 genomes]
rs73498338	0.85[AFR][1000 genomes]
rs73498347	0.85[AFR][1000 genomes]
rs73498348	0.85[AFR][1000 genomes]
rs73498355	0.85[AFR][1000 genomes]
rs73498358	0.85[AFR][1000 genomes]
rs73498359	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73498362	0.85[AFR][1000 genomes]
rs73498365	0.93[AFR][1000 genomes]
rs73500307	0.92[AFR][1000 genomes]
rs73500321	0.93[AFR][1000 genomes]
rs73500392	0.90[AFR][1000 genomes]
rs73502208	0.89[AFR][1000 genomes]
rs73502210	0.89[AFR][1000 genomes]
rs73551090	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73552520	0.81[AFR][1000 genomes]
rs73554631	0.81[AFR][1000 genomes]
rs73554641	0.83[AFR][1000 genomes]
rs73554646	0.83[AFR][1000 genomes]
rs73554650	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73554652	0.83[AFR][1000 genomes]
rs7856316	0.83[AFR][1000 genomes]
rs7857174	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7859684	0.83[AFR][1000 genomes]
rs7859979	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7866961	0.85[AFR][1000 genomes]
rs7867046	0.83[AFR][1000 genomes]
rs7869683	0.85[AFR][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	chr9:100396800-100410200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr9:100397000-100403000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
3	chr9:100397000-100405800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr9:100397000-100409200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr9:100397000-100410200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr9:100397000-100410200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr9:100397000-100411000	Weak transcription	Esophagus	oesophagus
8	chr9:100397200-100405600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr9:100397400-100401600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
10	chr9:100397400-100401800	Enhancers	Primary T killer memory cells from peripheral blood	blood
11	chr9:100397400-100402000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
12	chr9:100397400-100403000	Enhancers	Primary T helper naive cells from peripheral blood	blood
13	chr9:100397600-100401600	Enhancers	Liver	Liver
14	chr9:100397600-100402000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
15	chr9:100397600-100403000	Weak transcription	Placenta	Placenta
16	chr9:100397600-100403800	Weak transcription	H1 Cell Line	embryonic stem cell
17	chr9:100397600-100405000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr9:100397600-100405400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr9:100397600-100405400	Weak transcription	Fetal Kidney	kidney
20	chr9:100397600-100409800	Weak transcription	Colonic Mucosa	Colon
21	chr9:100397800-100405800	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr9:100398000-100403200	Weak transcription	Fetal Muscle Trunk	muscle
23	chr9:100398000-100410200	Weak transcription	Lung	lung
24	chr9:100398000-100418600	Weak transcription	Pancreas	Pancrea
25	chr9:100398400-100401800	Enhancers	A549	lung
26	chr9:100398400-100402400	Enhancers	Primary T helper cells fromperipheralblood	blood
27	chr9:100398400-100402600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr9:100398400-100402600	Weak transcription	Primary B cells from peripheral blood	blood
29	chr9:100398400-100402600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
30	chr9:100398400-100402600	Weak transcription	Fetal Muscle Leg	muscle
31	chr9:100398400-100402800	Weak transcription	Fetal Thymus	thymus
32	chr9:100398400-100402800	Enhancers	HepG2	liver
33	chr9:100398400-100403000	Weak transcription	Primary monocytes fromperipheralblood	blood
34	chr9:100398400-100403200	Weak transcription	Primary T cells fromperipheralblood	blood
35	chr9:100398400-100403400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr9:100398400-100403400	Weak transcription	HMEC	breast
37	chr9:100398400-100403800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
38	chr9:100398400-100403800	Weak transcription	Fetal Intestine Large	intestine
39	chr9:100398400-100404400	Weak transcription	Primary neutrophils fromperipheralblood	blood
40	chr9:100398400-100405400	Weak transcription	Placenta Amnion	Placenta Amnion
41	chr9:100398400-100405600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
42	chr9:100398400-100410200	Weak transcription	Fetal Intestine Small	intestine
43	chr9:100398400-100410200	Weak transcription	Fetal Stomach	stomach
44	chr9:100398400-100410200	Weak transcription	Spleen	Spleen
45	chr9:100398600-100403400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
46	chr9:100398600-100404000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chr9:100398600-100409800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
48	chr9:100399000-100403000	Enhancers	Fetal Heart	heart
49	chr9:100399200-100401600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
50	chr9:100399200-100405400	Weak transcription	NH-A	brain

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