Variant report

Variant	rs3797792
Chromosome Location	chr5:96341328-96341329
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:96143815..96145603-chr5:96340222..96341890,2	K562	blood:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11135481	0.82[CHB][hapmap];0.86[JPT][hapmap]
rs17087180	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17515806	0.81[EUR][1000 genomes]
rs17550815	0.90[EUR][1000 genomes]
rs17550822	0.81[EUR][1000 genomes]
rs2303139	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2303211	1.00[CEU][hapmap]
rs27731	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3198139	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3733904	1.00[JPT][hapmap]
rs3733905	0.86[JPT][hapmap];1.00[AMR][1000 genomes]
rs3756618	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3797787	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3806936	1.00[JPT][hapmap]
rs3806939	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3806941	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs3806942	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs3806943	0.81[EUR][1000 genomes]
rs3806944	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs3822678	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3822679	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3822687	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs7714122	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7721014	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7733301	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs7734264	1.00[CEU][hapmap]
rs999656	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432755	chr5:95987984-96657483	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv598962	chr5:96057891-96893164	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Genic enhancers Flanking Active TSS Active 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	49 gene(s)	inside rSNPs	diseases
3	nsv948703	chr5:96078309-96368839	Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
4	nsv1028741	chr5:96082401-96372165	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
5	nsv949058	chr5:96082433-96390619	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
6	nsv598963	chr5:96084776-96363407	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:96304800-96346600	Weak transcription	Lung	lung
2	chr5:96304800-96359600	Weak transcription	Hela-S3	cervix
3	chr5:96313400-96342600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr5:96313400-96342600	Weak transcription	HUES6 Cell Line	embryonic stem cell
5	chr5:96314000-96360200	Weak transcription	Fetal Brain Male	brain
6	chr5:96314200-96343600	Strong transcription	Primary B cells from peripheral blood	blood
7	chr5:96314200-96344000	Strong transcription	Primary B cells from cord blood	blood
8	chr5:96314200-96347600	Strong transcription	Fetal Thymus	thymus
9	chr5:96314400-96343800	Strong transcription	Dnd41	blood
10	chr5:96314800-96343200	Strong transcription	Primary monocytes fromperipheralblood	blood
11	chr5:96314800-96343800	Strong transcription	Monocytes-CD14+_RO01746	blood
12	chr5:96315400-96374800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr5:96315600-96353400	Weak transcription	Pancreas	Pancrea
14	chr5:96315600-96358600	Weak transcription	Brain Substantia Nigra	brain
15	chr5:96316000-96360000	Weak transcription	Cortex derived primary cultured neurospheres	brain
16	chr5:96316400-96346600	Weak transcription	NH-A	brain
17	chr5:96320000-96357600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr5:96321200-96344600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr5:96321600-96344800	Weak transcription	Small Intestine	intestine
20	chr5:96322200-96348600	Weak transcription	Fetal Kidney	kidney
21	chr5:96322200-96349800	Weak transcription	Psoas Muscle	Psoas
22	chr5:96322400-96353600	Weak transcription	Right Ventricle	heart
23	chr5:96322400-96358600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr5:96322400-96359600	Weak transcription	Gastric	stomach
25	chr5:96323800-96342200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr5:96326400-96346600	Weak transcription	Placenta Amnion	Placenta Amnion
27	chr5:96329800-96358800	Weak transcription	Brain Germinal Matrix	brain
28	chr5:96330000-96359800	Weak transcription	Aorta	Aorta
29	chr5:96330400-96359400	Weak transcription	Fetal Brain Female	brain
30	chr5:96330600-96353600	Weak transcription	Esophagus	oesophagus
31	chr5:96331600-96344600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
32	chr5:96331600-96356200	Weak transcription	Fetal Stomach	stomach
33	chr5:96331600-96357800	Weak transcription	Spleen	Spleen
34	chr5:96331800-96349800	Weak transcription	HSMM	muscle
35	chr5:96333400-96344600	Strong transcription	GM12878-XiMat	blood
36	chr5:96333600-96343000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr5:96333600-96374000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr5:96333800-96342600	Strong transcription	Primary hematopoietic stem cells	blood
39	chr5:96333800-96342800	Strong transcription	Primary neutrophils fromperipheralblood	blood
40	chr5:96333800-96343200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr5:96333800-96343200	Strong transcription	Duodenum Smooth Muscle	Duodenum
42	chr5:96333800-96344000	Strong transcription	Primary T cells fromperipheralblood	blood
43	chr5:96333800-96372800	Strong transcription	Placenta	Placenta
44	chr5:96334000-96341400	Strong transcription	Rectal Mucosa Donor 31	rectum
45	chr5:96334000-96343200	Strong transcription	Adipose Nuclei	Adipose
46	chr5:96334000-96343200	Strong transcription	Rectal Mucosa Donor 29	rectum
47	chr5:96334400-96342000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
48	chr5:96334400-96342200	Weak transcription	HUVEC	blood vessel
49	chr5:96334400-96346400	Weak transcription	HMEC	breast
50	chr5:96334800-96351800	Weak transcription	A549	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links