Variant report

Variant	rs7645544
Chromosome Location	chr3:121171853-121171854
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 108 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:99)

rs_ID	r²[population]
rs10451895	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10934551	0.84[EUR][1000 genomes]
rs11705939	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11706583	0.83[EUR][1000 genomes]
rs11707252	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11707354	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11708438	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11709378	0.83[EUR][1000 genomes]
rs11709726	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11711667	0.88[EUR][1000 genomes]
rs11713643	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11715085	0.90[ASN][1000 genomes]
rs11718918	0.84[EUR][1000 genomes]
rs12233510	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12496163	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12632308	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12634017	0.83[ASN][1000 genomes]
rs12635218	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13059229	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13076688	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13077237	0.83[EUR][1000 genomes]
rs13080007	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13081748	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13085365	0.84[EUR][1000 genomes]
rs13086811	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13095841	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13097659	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1381057	0.96[ASN][1000 genomes]
rs1381058	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1381059	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1877968	0.83[EUR][1000 genomes]
rs1877969	0.83[EUR][1000 genomes]
rs1986730	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1987097	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1987098	0.96[ASN][1000 genomes]
rs2030531	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2126139	0.93[ASN][1000 genomes]
rs2126140	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2127024	0.96[ASN][1000 genomes]
rs2169300	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2169301	0.83[EUR][1000 genomes]
rs2331921	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2331962	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs28406368	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3218649	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35362700	0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3732405	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3732406	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3772122	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3806614	0.83[EUR][1000 genomes]
rs3843345	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3845863	0.82[EUR][1000 genomes]
rs3911713	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4107754	0.93[ASN][1000 genomes]
rs4346498	0.93[ASN][1000 genomes]
rs4555467	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4676677	0.84[ASN][1000 genomes]
rs4676680	0.83[EUR][1000 genomes]
rs4676722	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4676728	0.83[EUR][1000 genomes]
rs541818	0.83[ASN][1000 genomes]
rs61796944	0.95[ASN][1000 genomes]
rs6438625	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6438626	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6438630	0.96[ASN][1000 genomes]
rs6438631	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6438633	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6765310	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6769377	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6778684	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6782025	0.96[ASN][1000 genomes]
rs6782033	0.96[ASN][1000 genomes]
rs6787048	0.93[ASN][1000 genomes]
rs6793029	0.93[ASN][1000 genomes]
rs6796068	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6797376	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6798699	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6806191	0.96[ASN][1000 genomes]
rs7609781	0.96[ASN][1000 genomes]
rs7612018	0.82[EUR][1000 genomes]
rs7613752	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7614639	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7615529	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7617748	0.84[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs7618570	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7621376	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7622867	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7622897	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7627978	0.96[ASN][1000 genomes]
rs7632907	0.93[ASN][1000 genomes]
rs7634611	0.96[ASN][1000 genomes]
rs7644928	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7645027	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7645050	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7645849	0.96[ASN][1000 genomes]
rs7645869	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7650439	0.96[ASN][1000 genomes]
rs7650658	0.96[ASN][1000 genomes]
rs9849118	0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv998555	chr3:120700604-121348015	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
2	nsv521397	chr3:120970900-121192350	Weak transcription Strong transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv591395	chr3:120970900-121501070	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
4	nsv591396	chr3:120970900-121557533	Strong transcription Active TSS Flanking Active TSS Enhancers Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
5	nsv591397	chr3:120977383-121505882	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
6	nsv829702	chr3:121045793-121227975	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv591400	chr3:121070299-121339354	Strong transcription Weak transcription Active TSS Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
8	nsv999335	chr3:121100283-121408766	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS 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	18 gene(s)	inside rSNPs	diseases
9	esv3356347	chr3:121169862-121174160	Weak transcription Strong transcription ZNF genes & repeats Enhancers	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:121139200-121186000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:121141200-121186000	Weak transcription	NHEK	skin
3	chr3:121146000-121177400	Weak transcription	Fetal Muscle Leg	muscle
4	chr3:121146000-121185800	Weak transcription	Fetal Stomach	stomach
5	chr3:121146200-121185600	Weak transcription	Fetal Muscle Trunk	muscle
6	chr3:121146400-121185800	Weak transcription	Fetal Intestine Large	intestine
7	chr3:121148400-121199600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr3:121149400-121181000	Weak transcription	HMEC	breast
9	chr3:121149400-121196600	Weak transcription	NH-A	brain
10	chr3:121149400-121199600	Weak transcription	Fetal Lung	lung
11	chr3:121149800-121177400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr3:121149800-121177400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr3:121151200-121185800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr3:121151200-121193400	Weak transcription	HSMM	muscle
15	chr3:121151200-121263800	Weak transcription	Duodenum Mucosa	Duodenum
16	chr3:121151400-121185600	Weak transcription	HUVEC	blood vessel
17	chr3:121151800-121177600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr3:121152600-121177400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr3:121153200-121177600	Weak transcription	K562	blood
20	chr3:121153800-121177400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr3:121155600-121177400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr3:121155800-121177600	Weak transcription	Thymus	Thymus
23	chr3:121159600-121177400	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr3:121160400-121177400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
25	chr3:121167200-121177400	Weak transcription	Cortex derived primary cultured neurospheres	brain
26	chr3:121167200-121178800	Weak transcription	Rectal Mucosa Donor 31	rectum
27	chr3:121168600-121184600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
28	chr3:121168800-121177200	Weak transcription	Primary hematopoietic stem cells	blood
29	chr3:121168800-121177400	Weak transcription	A549	lung
30	chr3:121168800-121177400	Weak transcription	Hela-S3	cervix
31	chr3:121169000-121177400	Weak transcription	Primary neutrophils fromperipheralblood	blood
32	chr3:121169000-121177400	Weak transcription	GM12878-XiMat	blood
33	chr3:121170000-121172000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
34	chr3:121170400-121172000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr3:121170800-121177600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr3:121171000-121172200	Strong transcription	Dnd41	blood
37	chr3:121171200-121177400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr3:121171200-121177600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr3:121171400-121177400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr3:121171600-121174800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr3:121171600-121177400	Weak transcription	H1 Cell Line	embryonic stem cell
42	chr3:121171600-121177400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr3:121171600-121177400	Weak transcription	HUES48 Cell Line	embryonic stem cell
44	chr3:121171600-121177400	Weak transcription	HUES6 Cell Line	embryonic stem cell
45	chr3:121171600-121177400	Weak transcription	HUES64 Cell Line	embryonic stem cell
46	chr3:121171600-121177400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
47	chr3:121171600-121177400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
48	chr3:121171600-121177400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
49	chr3:121171600-121177400	Weak transcription	Primary monocytes fromperipheralblood	blood
50	chr3:121171600-121177400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links