Variant report

Variant	rs28364423
Chromosome Location	chr15:42681926-42681927
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs16972927	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16972930	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16972969	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16973015	1.00[GIH][hapmap];0.84[LWK][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16973018	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16973022	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16973177	0.83[EUR][1000 genomes]
rs16973182	0.83[EUR][1000 genomes]
rs16973184	0.83[EUR][1000 genomes]
rs16973188	0.83[EUR][1000 genomes]
rs16973200	1.00[EUR][1000 genomes]
rs16973206	0.83[EUR][1000 genomes]
rs17593	1.00[GIH][hapmap];1.00[TSI][hapmap];0.83[EUR][1000 genomes]
rs28364383	0.83[EUR][1000 genomes]
rs28364387	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28364399	1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs4307925	0.83[EUR][1000 genomes]
rs4486855	0.83[EUR][1000 genomes]
rs4516202	0.83[EUR][1000 genomes]
rs7167683	1.00[GIH][hapmap];1.00[TSI][hapmap];0.83[EUR][1000 genomes]
rs7174880	0.83[EUR][1000 genomes]
rs728507	0.83[EUR][1000 genomes]
rs728508	0.83[EUR][1000 genomes]
rs728509	0.83[EUR][1000 genomes]
rs728510	1.00[EUR][1000 genomes]
rs8024452	0.83[EUR][1000 genomes]
rs8026890	0.83[EUR][1000 genomes]
rs8027800	0.83[EUR][1000 genomes]
rs8033108	1.00[EUR][1000 genomes]
rs8033734	1.00[GIH][hapmap];1.00[TSI][hapmap];0.83[EUR][1000 genomes]
rs8033882	0.83[EUR][1000 genomes]
rs8033960	0.83[EUR][1000 genomes]
rs8035332	0.83[EUR][1000 genomes]
rs8035521	0.83[EUR][1000 genomes]
rs8038771	0.83[EUR][1000 genomes]
rs8038967	0.83[EUR][1000 genomes]
rs8039470	0.83[EUR][1000 genomes]
rs8040129	0.83[EUR][1000 genomes]
rs8040726	1.00[EUR][1000 genomes]
rs934877	1.00[AMR][1000 genomes];1.00[EUR][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	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
2	nsv1049445	chr15:42239738-42830484	Enhancers Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
3	nsv542366	chr15:42239738-42830484	Weak transcription Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
4	nsv832986	chr15:42587825-42753664	Genic enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv832987	chr15:42627447-42792348	Active TSS Strong transcription Enhancers Flanking Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
6	nsv932995	chr15:42640015-42704121	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	esv3334708	chr15:42664344-42827738	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:42652800-42684400	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr15:42653200-42691600	Weak transcription	Stomach Smooth Muscle	stomach
3	chr15:42656800-42693400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr15:42656800-42697800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr15:42663000-42691400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr15:42672400-42688800	Weak transcription	Esophagus	oesophagus
7	chr15:42673400-42691800	Weak transcription	Primary T cells from cord blood	blood
8	chr15:42674000-42694400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr15:42674600-42682600	Strong transcription	Monocytes-CD14+_RO01746	blood
10	chr15:42674600-42684400	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr15:42675200-42683600	Weak transcription	Duodenum Mucosa	Duodenum
12	chr15:42675200-42684800	Strong transcription	Primary monocytes fromperipheralblood	blood
13	chr15:42675200-42702800	Weak transcription	Colon Smooth Muscle	Colon
14	chr15:42675600-42691600	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr15:42676200-42682400	Strong transcription	Liver	Liver
16	chr15:42676800-42693200	Weak transcription	Fetal Stomach	stomach
17	chr15:42677000-42693400	Weak transcription	GM12878-XiMat	blood
18	chr15:42677200-42684000	Weak transcription	Rectal Mucosa Donor 31	rectum
19	chr15:42677400-42687800	Weak transcription	Brain Substantia Nigra	brain
20	chr15:42677600-42689000	Weak transcription	Right Ventricle	heart
21	chr15:42677800-42682600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
22	chr15:42678200-42688000	Weak transcription	Brain Hippocampus Middle	brain
23	chr15:42678400-42682200	Weak transcription	Fetal Intestine Large	intestine
24	chr15:42678400-42687400	Strong transcription	Primary neutrophils fromperipheralblood	blood
25	chr15:42678600-42691200	Weak transcription	Gastric	stomach
26	chr15:42678600-42706800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr15:42678800-42684600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr15:42678800-42691600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr15:42678800-42694000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr15:42678800-42702800	Weak transcription	NHLF	lung
31	chr15:42679000-42683600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr15:42679000-42684400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr15:42679000-42687400	Weak transcription	Spleen	Spleen
34	chr15:42679000-42691400	Weak transcription	Thymus	Thymus
35	chr15:42679000-42706800	Weak transcription	Right Atrium	heart
36	chr15:42679200-42691600	Weak transcription	Brain Anterior Caudate	brain
37	chr15:42679200-42694000	Weak transcription	Brain Cingulate Gyrus	brain
38	chr15:42679600-42691400	Weak transcription	Primary T helper cells fromperipheralblood	blood
39	chr15:42680000-42682000	Enhancers	Adipose Nuclei	Adipose
40	chr15:42680000-42684600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr15:42680000-42693200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr15:42680200-42690200	Strong transcription	Fetal Muscle Leg	muscle
43	chr15:42680200-42691400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
44	chr15:42680200-42694000	Weak transcription	Left Ventricle	heart
45	chr15:42680200-42696400	Weak transcription	HSMMtube	muscle
46	chr15:42680400-42683800	Weak transcription	Placenta Amnion	Placenta Amnion
47	chr15:42680400-42684400	Weak transcription	Fetal Muscle Trunk	muscle
48	chr15:42680400-42684600	Weak transcription	Primary B cells from cord blood	blood
49	chr15:42680600-42691200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
50	chr15:42680600-42693600	Weak transcription	Primary hematopoietic stem cells	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links