Variant report

Variant	rs56198526
Chromosome Location	chr3:119703664-119703665
allele	G/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:20)

rs_ID	r²[population]
rs55695126	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55954491	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58540702	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6771503	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6804704	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854726	0.89[AFR][1000 genomes]
rs73854728	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854729	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854739	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854744	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854747	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854749	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854751	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854753	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854755	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854757	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854762	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854765	1.00[AMR][1000 genomes]
rs73854767	1.00[AMR][1000 genomes]
rs7626888	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949589	chr3:119560606-120175917	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
2	nsv829696	chr3:119567659-119711405	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv1001476	chr3:119575386-120075417	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
4	nsv536704	chr3:119575386-120075417	Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
5	esv3445191	chr3:119697110-119709166	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:119631000-119717000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr3:119656600-119718400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr3:119665800-119716800	Weak transcription	HSMM	muscle
4	chr3:119681200-119723200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr3:119687200-119716600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr3:119689000-119710600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
7	chr3:119689000-119711800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr3:119689000-119722600	Weak transcription	Gastric	stomach
9	chr3:119692400-119717000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr3:119692400-119723200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr3:119693600-119732200	Weak transcription	A549	lung
12	chr3:119696400-119708800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr3:119696400-119709200	Weak transcription	HMEC	breast
14	chr3:119697000-119704600	Weak transcription	NHEK	skin
15	chr3:119698400-119703800	Weak transcription	GM12878-XiMat	blood
16	chr3:119698400-119707400	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr3:119698400-119709400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr3:119698800-119708400	Weak transcription	Monocytes-CD14+_RO01746	blood
19	chr3:119699200-119704000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
20	chr3:119699600-119703800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr3:119700600-119706000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr3:119700600-119722800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr3:119700800-119706000	Weak transcription	Spleen	Spleen
24	chr3:119700800-119707200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr3:119700800-119717000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr3:119701000-119703800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr3:119701000-119705800	Weak transcription	Rectal Mucosa Donor 31	rectum
28	chr3:119701000-119720000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
29	chr3:119701000-119722600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr3:119701400-119703800	Weak transcription	Duodenum Mucosa	Duodenum
31	chr3:119701400-119706000	Weak transcription	Thymus	Thymus
32	chr3:119701400-119712400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr3:119701800-119704200	Weak transcription	Primary B cells from cord blood	blood
34	chr3:119701800-119717200	Weak transcription	Fetal Thymus	thymus
35	chr3:119703200-119708400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links