Variant report

Variant	rs2339746
Chromosome Location	chr15:35206176-35206177
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs10152246	0.93[ASN][1000 genomes]
rs10519967	0.93[ASN][1000 genomes]
rs11073076	0.80[ASN][1000 genomes]
rs11633307	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11852957	0.88[ASN][1000 genomes]
rs11855784	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11857217	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11858044	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12593379	0.93[ASN][1000 genomes]
rs12593818	0.91[ASN][1000 genomes]
rs12595318	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12708534	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12898639	0.96[ASN][1000 genomes]
rs12899377	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12901028	0.96[ASN][1000 genomes]
rs12901457	0.93[ASN][1000 genomes]
rs12901991	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12902633	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12904279	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12915493	0.93[ASN][1000 genomes]
rs12917386	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12917597	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1376784	0.93[ASN][1000 genomes]
rs16959966	0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2044920	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2060811	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2123048	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2290320	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3743121	0.88[ASN][1000 genomes]
rs3816447	0.93[ASN][1000 genomes]
rs3848167	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4513050	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4923817	0.95[ASN][1000 genomes]
rs4923818	0.90[ASN][1000 genomes]
rs4924324	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4924325	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4924339	0.93[ASN][1000 genomes]
rs4924344	0.96[ASN][1000 genomes]
rs4924355	0.96[ASN][1000 genomes]
rs4924357	0.94[ASN][1000 genomes]
rs4924369	0.93[ASN][1000 genomes]
rs6495723	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6495724	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6495726	0.91[ASN][1000 genomes]
rs7164977	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7165835	0.92[ASN][1000 genomes]
rs7167892	0.96[ASN][1000 genomes]
rs7170737	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7171808	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7177337	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7177962	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7179833	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7181836	0.86[AMR][1000 genomes]
rs7182356	0.85[AMR][1000 genomes]
rs7182492	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7497306	0.91[ASN][1000 genomes]
rs8024212	0.81[ASN][1000 genomes]
rs8025770	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8029192	0.80[ASN][1000 genomes]
rs8031583	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8031677	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8036690	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8040551	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs959478	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs963425	0.93[ASN][1000 genomes]
rs9672656	0.81[ASN][1000 genomes]
rs9806487	0.93[ASN][1000 genomes]
rs9920529	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9920918	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[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	esv3350109	chr15:34668106-35534229	Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv522411	chr15:34953986-35462981	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
3	nsv457106	chr15:35049787-35227613	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv569153	chr15:35049787-35227613	Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	esv2761865	chr15:35101678-35271639	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
6	nsv832967	chr15:35110102-35267906	Strong transcription Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Genic enhancers Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
7	nsv904071	chr15:35150897-35250771	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
8	nsv904072	chr15:35150897-35259376	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
9	nsv569154	chr15:35165366-35259376	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	7 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	chr15:35140400-35221600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr15:35186000-35206400	Weak transcription	Right Ventricle	heart
3	chr15:35186000-35206600	Weak transcription	Small Intestine	intestine
4	chr15:35186000-35212400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr15:35186000-35212600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr15:35186000-35213000	Strong transcription	Primary monocytes fromperipheralblood	blood
7	chr15:35186000-35220000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr15:35186000-35220000	Weak transcription	Pancreas	Pancrea
9	chr15:35186000-35223200	Weak transcription	Gastric	stomach
10	chr15:35186000-35232000	Weak transcription	Fetal Brain Male	brain
11	chr15:35186200-35212000	Strong transcription	Primary B cells from peripheral blood	blood
12	chr15:35186200-35212400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr15:35186200-35212400	Strong transcription	Liver	Liver
14	chr15:35186400-35238800	Strong transcription	Primary T helper cells fromperipheralblood	blood
15	chr15:35186600-35212200	Strong transcription	Primary T cells fromperipheralblood	blood
16	chr15:35186600-35212200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr15:35186600-35212400	Strong transcription	HUES6 Cell Line	embryonic stem cell
18	chr15:35187200-35212000	Strong transcription	HUES64 Cell Line	embryonic stem cell
19	chr15:35187400-35212000	Strong transcription	Adipose Nuclei	Adipose
20	chr15:35191400-35212800	Strong transcription	HUES48 Cell Line	embryonic stem cell
21	chr15:35192000-35212200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr15:35192200-35211200	Strong transcription	Rectal Mucosa Donor 31	rectum
23	chr15:35192200-35212200	Strong transcription	Monocytes-CD14+_RO01746	blood
24	chr15:35192200-35212400	Strong transcription	Placenta	Placenta
25	chr15:35192400-35212000	Strong transcription	Duodenum Mucosa	Duodenum
26	chr15:35192400-35212400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr15:35192600-35212000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
28	chr15:35192600-35212400	Strong transcription	A549	lung
29	chr15:35193200-35206600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
30	chr15:35193800-35206400	Weak transcription	Placenta Amnion	Placenta Amnion
31	chr15:35194200-35207600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
32	chr15:35195600-35208400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr15:35196600-35207800	Strong transcription	Fetal Intestine Large	intestine
34	chr15:35196600-35211000	Strong transcription	Brain Inferior Temporal Lobe	brain
35	chr15:35197000-35207200	Strong transcription	Primary hematopoietic stem cells	blood
36	chr15:35197000-35211200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr15:35197200-35211000	Strong transcription	NH-A	brain
38	chr15:35197200-35212200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr15:35197200-35212600	Strong transcription	Primary T helper cells PMA-I stimulated	--
40	chr15:35197400-35211200	Strong transcription	Duodenum Smooth Muscle	Duodenum
41	chr15:35197400-35212000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr15:35197600-35207000	Strong transcription	NHDF-Ad	bronchial
43	chr15:35197600-35212200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr15:35197600-35212200	Strong transcription	Rectal Mucosa Donor 29	rectum
45	chr15:35197600-35212200	Strong transcription	Dnd41	blood
46	chr15:35197600-35238800	Strong transcription	Primary neutrophils fromperipheralblood	blood
47	chr15:35198000-35208200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
48	chr15:35198000-35212200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
49	chr15:35198000-35220600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
50	chr15:35198200-35207000	Strong transcription	HepG2	liver

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