Variant report

Variant	rs10412043
Chromosome Location	chr19:37826626-37826627
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:2)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:2 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MXI1	chr19:37824749-37826961	SK-N-SH	brain:	n/a	n/a
2	POLR2A	chr19:37826437-37826823	GM12878	blood:	n/a	n/a

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr19:37824652..37827295-chr19:37827971..37830773,4	MCF-7	breast:
2	chr19:37822549..37827431-chr19:37836072..37838954,4	MCF-7	breast:
3	chr19:37807599..37810002-chr19:37824275..37826787,2	MCF-7	breast:
4	chr19:37806982..37809957-chr19:37825534..37828988,3	MCF-7	breast:
5	chr19:37825178..37827025-chr19:37995882..37998065,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000267682	TF binding region
ENSG00000181666	Chromatin interaction
ENSG00000267682	Chromatin interaction
ENSG00000188227	Chromatin interaction
ENSG00000266916	Chromatin interaction

Extended variants
information (count: 103 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:100)

rs_ID	r²[population]
rs1015848	0.82[EUR][1000 genomes]
rs1015849	0.82[EUR][1000 genomes]
rs1035479	0.85[EUR][1000 genomes]
rs10403613	0.96[EUR][1000 genomes]
rs10404602	0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10404920	0.90[EUR][1000 genomes]
rs10405064	0.94[EUR][1000 genomes]
rs10405325	0.86[EUR][1000 genomes]
rs10405407	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10406177	0.83[EUR][1000 genomes]
rs10407084	0.82[EUR][1000 genomes]
rs10409204	0.83[EUR][1000 genomes]
rs10413602	0.84[EUR][1000 genomes]
rs10414904	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10415024	0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10415358	0.97[EUR][1000 genomes]
rs10415937	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10417503	0.96[EUR][1000 genomes]
rs10417844	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10420430	0.84[EUR][1000 genomes]
rs10420754	0.81[EUR][1000 genomes]
rs10422074	0.84[EUR][1000 genomes]
rs10422423	0.96[EUR][1000 genomes]
rs10422667	0.82[EUR][1000 genomes]
rs10422967	0.96[EUR][1000 genomes]
rs10424574	0.95[EUR][1000 genomes]
rs10426297	0.92[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs10426618	0.82[EUR][1000 genomes]
rs10426666	0.95[EUR][1000 genomes]
rs10426699	0.97[EUR][1000 genomes]
rs11671972	0.85[ASN][1000 genomes]
rs12104380	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12104381	0.94[EUR][1000 genomes]
rs12709812	0.88[EUR][1000 genomes]
rs12709813	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12972252	0.82[EUR][1000 genomes]
rs12979470	0.84[EUR][1000 genomes]
rs12981532	0.84[EUR][1000 genomes]
rs12982333	0.91[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs13343471	0.83[EUR][1000 genomes]
rs13343485	0.89[EUR][1000 genomes]
rs13345116	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13345148	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1373991	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1559229	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1823061	0.93[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs2081096	0.81[EUR][1000 genomes]
rs2112923	0.83[EUR][1000 genomes]
rs2303131	0.83[EUR][1000 genomes]
rs28402338	0.96[EUR][1000 genomes]
rs28623164	0.84[EUR][1000 genomes]
rs2891699	0.84[EUR][1000 genomes]
rs34544865	0.82[EUR][1000 genomes]
rs34603719	0.82[EUR][1000 genomes]
rs35085437	0.96[EUR][1000 genomes]
rs35777021	0.83[EUR][1000 genomes]
rs3745765	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3760825	0.83[EUR][1000 genomes]
rs3803895	0.85[EUR][1000 genomes]
rs4417644	0.96[EUR][1000 genomes]
rs4452075	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4801759	0.82[EUR][1000 genomes]
rs4803229	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4803347	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4803460	0.85[EUR][1000 genomes]
rs4803539	0.85[EUR][1000 genomes]
rs4969487	0.96[EUR][1000 genomes]
rs57795776	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs59224125	0.81[EUR][1000 genomes]
rs6508711	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6508713	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6508714	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6508715	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6508716	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6508719	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs67293224	0.88[EUR][1000 genomes]
rs713256	0.92[EUR][1000 genomes]
rs7246993	0.84[EUR][1000 genomes]
rs7247259	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7252099	0.83[EUR][1000 genomes]
rs7252325	0.84[EUR][1000 genomes]
rs7252346	0.84[EUR][1000 genomes]
rs7253091	0.81[EUR][1000 genomes]
rs7255407	0.84[EUR][1000 genomes]
rs7255972	0.83[EUR][1000 genomes]
rs7256130	0.82[EUR][1000 genomes]
rs7257495	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7257672	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7258692	0.97[EUR][1000 genomes]
rs7259968	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7408133	0.97[EUR][1000 genomes]
rs7408446	0.93[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs7408563	0.97[EUR][1000 genomes]
rs8106839	0.81[EUR][1000 genomes]
rs8109632	0.84[EUR][1000 genomes]
rs8111782	0.90[EUR][1000 genomes]
rs8112610	0.82[EUR][1000 genomes]
rs9304566	0.96[EUR][1000 genomes]
rs9676967	0.84[EUR][1000 genomes]
rs9917081	0.89[EUR][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	nsv918028	chr19:37020645-38014526	Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers 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	73 gene(s)	inside rSNPs	diseases
2	esv2757695	chr19:37794850-38051606	Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	esv2758759	chr19:37794850-38051606	ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:37823400-37827200	ZNF genes & repeats	A549	lung
2	chr19:37824600-37826800	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood
3	chr19:37825000-37826800	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr19:37825000-37826800	Active TSS	iPS-20b Cell Line	embryonic stem cell
5	chr19:37825200-37826800	Active TSS	ES-I3 Cell Line	embryonic stem cell
6	chr19:37825200-37826800	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr19:37825200-37827000	Transcr. at gene 5' and 3'	Dnd41	blood
8	chr19:37825400-37826800	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr19:37825400-37826800	Active TSS	NHLF	lung
10	chr19:37825800-37826800	Flanking Active TSS	Adipose Nuclei	Adipose
11	chr19:37825800-37826800	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
12	chr19:37825800-37826800	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
13	chr19:37825800-37827000	Flanking Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
14	chr19:37826000-37826800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr19:37826000-37826800	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr19:37826000-37826800	Flanking Active TSS	Fetal Brain Female	brain
17	chr19:37826000-37826800	Flanking Active TSS	Fetal Lung	lung
18	chr19:37826000-37826800	Flanking Active TSS	Right Ventricle	heart
19	chr19:37826000-37826800	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
20	chr19:37826000-37827000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr19:37826000-37827000	Flanking Active TSS	Brain Angular Gyrus	brain
22	chr19:37826000-37827000	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
23	chr19:37826000-37827000	Enhancers	Spleen	Spleen
24	chr19:37826200-37826800	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr19:37826200-37826800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
26	chr19:37826200-37826800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
27	chr19:37826200-37826800	Flanking Active TSS	Fetal Brain Male	brain
28	chr19:37826200-37826800	Flanking Active TSS	Fetal Kidney	kidney
29	chr19:37826200-37826800	Enhancers	Gastric	stomach
30	chr19:37826200-37826800	Flanking Active TSS	Rectal Smooth Muscle	rectum
31	chr19:37826200-37826800	Flanking Active TSS	NHDF-Ad	bronchial
32	chr19:37826200-37827000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
33	chr19:37826200-37827000	Enhancers	Esophagus	oesophagus
34	chr19:37826200-37827200	Enhancers	Primary T cells fromperipheralblood	blood
35	chr19:37826200-37829000	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr19:37826200-37853200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
37	chr19:37826400-37826800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr19:37826400-37826800	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
39	chr19:37826400-37826800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
40	chr19:37826400-37826800	Enhancers	Primary hematopoietic stem cells	blood
41	chr19:37826400-37826800	Enhancers	Primary T helper naive cells from peripheral blood	blood
42	chr19:37826400-37826800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
43	chr19:37826400-37826800	Enhancers	Liver	Liver
44	chr19:37826400-37826800	Enhancers	Brain Hippocampus Middle	brain
45	chr19:37826400-37826800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
46	chr19:37826400-37826800	Enhancers	Fetal Muscle Trunk	muscle
47	chr19:37826400-37826800	Enhancers	Thymus	Thymus
48	chr19:37826400-37827000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
49	chr19:37826400-37827000	Enhancers	Primary T helper cells fromperipheralblood	blood
50	chr19:37826400-37827000	Enhancers	Primary T regulatory cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links