Variant report

Variant	rs2695169
Chromosome Location	chr15:42035713-42035714
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:42034159..42036679-chr15:42048298..42050430,2	K562	blood:
2	chr15:42035386..42037537-chr15:42041123..42043627,2	MCF-7	breast:
3	chr15:42028588..42031786-chr15:42034789..42036907,3	K562	blood:

Extended variants
information (count: 98 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:91)

rs_ID	r²[population]
rs1008710	0.93[CEU][hapmap]
rs10152332	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10152364	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10775122	0.92[CEU][hapmap];0.83[AMR][1000 genomes]
rs10775123	0.93[CEU][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10775124	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1081022	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs11070345	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11070347	0.92[CEU][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11632100	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11634840	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11639146	0.83[AMR][1000 genomes]
rs11855017	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1197666	0.92[CEU][hapmap]
rs1197670	0.81[ASN][1000 genomes]
rs1197768	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1197769	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1197772	0.92[CEU][hapmap];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12148330	0.93[CEU][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12441249	0.93[CEU][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12900295	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12902548	0.81[AMR][1000 genomes]
rs12915325	0.92[CEU][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12916525	0.84[AMR][1000 genomes]
rs12916992	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1648830	0.93[CEU][hapmap]
rs1648833	1.00[CEU][hapmap]
rs1648834	1.00[CEU][hapmap]
rs1648835	0.92[CEU][hapmap]
rs1672465	0.92[CEU][hapmap]
rs1672466	0.93[CEU][hapmap]
rs16972089	0.85[CEU][hapmap];0.86[EUR][1000 genomes]
rs16972136	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs1867416	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1867417	0.93[CEU][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1880937	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1880938	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1899819	0.93[CEU][hapmap];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs1899820	0.92[CEU][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1899821	0.93[CEU][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1918314	0.92[CEU][hapmap];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2009310	0.85[ASN][1000 genomes]
rs2141141	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2178004	0.93[CEU][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2250964	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2577947	0.93[CEU][hapmap];0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577950	0.92[CEU][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577951	0.93[CEU][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577952	0.81[ASN][1000 genomes]
rs2577953	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2577954	0.93[CEU][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2577955	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2577958	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2577959	0.93[CEU][hapmap];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2605569	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2605570	0.85[CEU][hapmap];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2695162	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2695163	0.92[CEU][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2695164	0.92[CEU][hapmap];0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2695166	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2695168	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2695170	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2918051	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2925337	0.92[CEU][hapmap];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2950446	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4244585	0.92[CEU][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4270151	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4371125	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4465584	0.93[CEU][hapmap];0.91[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs4923908	0.93[CEU][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4924568	0.92[CEU][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4924571	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4924572	0.92[CEU][hapmap];0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62002067	0.83[AMR][1000 genomes]
rs62002069	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6493008	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6493010	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7164209	0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7169496	0.92[CEU][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7169668	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7176474	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7177232	0.84[AMR][1000 genomes]
rs7177911	0.93[CEU][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7178205	0.93[CEU][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8027390	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8028886	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8030179	0.83[ASN][1000 genomes]
rs8034261	0.92[CEU][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8038148	0.90[ASN][1000 genomes]
rs8038783	0.92[CEU][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8039440	0.92[CEU][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049514	chr15:41958482-42081210	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv1048655	chr15:41978391-42049360	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region miRNA	6 gene(s)	inside rSNPs	diseases
3	nsv931223	chr15:41989960-42781757	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
4	nsv1036086	chr15:42004962-42091451	Strong transcription Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv1041861	chr15:42016097-42062287	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
6	nsv1054671	chr15:42016097-42098896	Flanking Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
7	nsv1044347	chr15:42023805-42049360	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Enhancers Active TSS Flanking Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2695169	MGA	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:41972400-42065200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr15:41989000-42041600	Weak transcription	Fetal Brain Male	brain
3	chr15:42003800-42056000	Weak transcription	Colonic Mucosa	Colon
4	chr15:42006400-42041400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr15:42009800-42056800	Weak transcription	Fetal Heart	heart
6	chr15:42017400-42062600	Strong transcription	Primary T cells fromperipheralblood	blood
7	chr15:42019000-42037000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr15:42019200-42037200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr15:42019400-42036800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr15:42019400-42037000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr15:42019400-42060600	Strong transcription	Primary T helper cells fromperipheralblood	blood
12	chr15:42020000-42036200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr15:42020400-42036200	Strong transcription	Fetal Thymus	thymus
14	chr15:42020600-42037000	Strong transcription	Hela-S3	cervix
15	chr15:42021000-42036800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr15:42022400-42036800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
17	chr15:42023800-42037000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr15:42023800-42037200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
19	chr15:42024000-42036800	Strong transcription	Primary B cells from peripheral blood	blood
20	chr15:42024000-42037000	Strong transcription	Primary monocytes fromperipheralblood	blood
21	chr15:42024000-42037200	Strong transcription	Monocytes-CD14+_RO01746	blood
22	chr15:42024600-42037000	Strong transcription	Placenta	Placenta
23	chr15:42025000-42045800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr15:42025200-42036000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr15:42025200-42065400	Weak transcription	Pancreatic Islets	Pancreatic Islet
26	chr15:42025400-42037200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr15:42025600-42037000	Strong transcription	HUES64 Cell Line	embryonic stem cell
28	chr15:42025800-42045000	Weak transcription	Stomach Mucosa	stomach
29	chr15:42027000-42037800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr15:42028800-42041200	Weak transcription	Muscle Satellite Cultured Cells	--
31	chr15:42029000-42041400	Weak transcription	Aorta	Aorta
32	chr15:42029000-42052200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
33	chr15:42029000-42054200	Weak transcription	Small Intestine	intestine
34	chr15:42029200-42041400	Weak transcription	NHDF-Ad	bronchial
35	chr15:42029200-42041600	Weak transcription	HMEC	breast
36	chr15:42029200-42048400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
37	chr15:42029400-42040800	Weak transcription	Placenta Amnion	Placenta Amnion
38	chr15:42030000-42038200	Weak transcription	HUVEC	blood vessel
39	chr15:42030400-42046400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
40	chr15:42032200-42037000	Strong transcription	Primary B cells from cord blood	blood
41	chr15:42032600-42041400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
42	chr15:42033000-42036200	Strong transcription	Fetal Stomach	stomach
43	chr15:42033400-42036200	Strong transcription	Fetal Intestine Large	intestine
44	chr15:42033600-42035800	Strong transcription	H1 Cell Line	embryonic stem cell
45	chr15:42033600-42036000	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
46	chr15:42033600-42037200	Strong transcription	Fetal Intestine Small	intestine
47	chr15:42033800-42036000	Strong transcription	Rectal Mucosa Donor 29	rectum
48	chr15:42033800-42038800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
49	chr15:42034000-42035800	Strong transcription	Fetal Muscle Leg	muscle
50	chr15:42034000-42035800	Strong transcription	Stomach Smooth Muscle	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links