Variant report

Variant	rs6774405
Chromosome Location	chr3:112065028-112065029
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11714917	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs11716857	0.91[ASN][1000 genomes]
rs13073116	0.91[ASN][1000 genomes]
rs17513726	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2280462	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2399411	0.91[ASN][1000 genomes]
rs2399420	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs4234416	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs4550804	0.91[ASN][1000 genomes]
rs56037521	0.91[ASN][1000 genomes]
rs62264134	0.91[ASN][1000 genomes]
rs62264135	0.91[ASN][1000 genomes]
rs62264136	0.91[ASN][1000 genomes]
rs62264137	0.91[ASN][1000 genomes]
rs6438066	0.83[ASN][1000 genomes]
rs6438067	0.87[ASN][1000 genomes]
rs6438068	1.00[CEU][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6771014	0.91[ASN][1000 genomes]
rs7619941	1.00[CEU][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs939576	0.91[ASN][1000 genomes]
rs939577	0.91[ASN][1000 genomes]
rs939578	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs9814088	0.91[ASN][1000 genomes]
rs9818526	0.91[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv10307	chr3:111903974-112087686	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112052600-112066400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr3:112052800-112076200	Weak transcription	Right Ventricle	heart
3	chr3:112053200-112066400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr3:112053200-112076400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr3:112054000-112065800	Weak transcription	Fetal Kidney	kidney
6	chr3:112054000-112068600	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr3:112054800-112066400	Weak transcription	Rectal Smooth Muscle	rectum
8	chr3:112054800-112076800	Weak transcription	Lung	lung
9	chr3:112054800-112083000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr3:112055200-112068800	Weak transcription	Fetal Intestine Small	intestine
11	chr3:112055600-112080200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr3:112055800-112076400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
13	chr3:112056200-112065400	Weak transcription	Colon Smooth Muscle	Colon
14	chr3:112056600-112076400	Weak transcription	Primary T helper cells fromperipheralblood	blood
15	chr3:112057800-112067000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr3:112057800-112068800	Strong transcription	HUES6 Cell Line	embryonic stem cell
17	chr3:112058600-112067400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
18	chr3:112058800-112069800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr3:112059000-112066600	Strong transcription	HUES64 Cell Line	embryonic stem cell
20	chr3:112059200-112069000	Strong transcription	H1 Cell Line	embryonic stem cell
21	chr3:112059600-112066600	Weak transcription	Brain Substantia Nigra	brain
22	chr3:112059600-112075000	Strong transcription	Fetal Thymus	thymus
23	chr3:112059800-112065600	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr3:112061200-112083000	Weak transcription	Colonic Mucosa	Colon
25	chr3:112061400-112076000	Strong transcription	Primary hematopoietic stem cells	blood
26	chr3:112061800-112067400	Strong transcription	HUES48 Cell Line	embryonic stem cell
27	chr3:112062200-112066200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
28	chr3:112062200-112066600	Strong transcription	Fetal Lung	lung
29	chr3:112062200-112067800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
30	chr3:112062400-112069000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr3:112062400-112083000	Weak transcription	Sigmoid Colon	Sigmoid Colon
32	chr3:112062600-112076600	Strong transcription	Primary B cells from cord blood	blood
33	chr3:112062800-112074600	Strong transcription	Primary B cells from peripheral blood	blood
34	chr3:112063000-112065600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr3:112063000-112066800	Strong transcription	Brain Anterior Caudate	brain
36	chr3:112063200-112066200	Strong transcription	Fetal Brain Male	brain
37	chr3:112063200-112066400	Strong transcription	Brain Inferior Temporal Lobe	brain
38	chr3:112063200-112066400	Strong transcription	Fetal Muscle Leg	muscle
39	chr3:112063200-112066600	Strong transcription	Adipose Nuclei	Adipose
40	chr3:112063200-112067000	Strong transcription	H9 Cell Line	embryonic stem cell
41	chr3:112063200-112067400	Strong transcription	Aorta	Aorta
42	chr3:112063400-112066200	Strong transcription	ES-I3 Cell Line	embryonic stem cell
43	chr3:112063400-112066800	Strong transcription	Ovary	ovary
44	chr3:112063400-112067200	Strong transcription	Fetal Brain Female	brain
45	chr3:112063400-112067400	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
46	chr3:112063400-112074200	Strong transcription	Brain Germinal Matrix	brain
47	chr3:112063600-112066400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
48	chr3:112063600-112066400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
49	chr3:112063600-112068600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
50	chr3:112063800-112065800	Strong transcription	Brain Hippocampus Middle	brain

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