Variant report

Variant	rs28623652
Chromosome Location	chr6:79661642-79661643
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10223389	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6899945	1.00[EUR][1000 genomes]
rs6933121	1.00[EUR][1000 genomes]
rs9443629	1.00[EUR][1000 genomes]
rs9443639	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9448574	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9448575	1.00[EUR][1000 genomes]
rs9448579	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9448583	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9448585	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9448589	1.00[EUR][1000 genomes]
rs9448592	1.00[EUR][1000 genomes]
rs9448608	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9448620	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9448642	1.00[EUR][1000 genomes]
rs9448644	1.00[EUR][1000 genomes]
rs9448645	1.00[EUR][1000 genomes]
rs9448649	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1015352	chr6:79521820-79757024	Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv830705	chr6:79659297-79829530	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:79648000-79681200	Strong transcription	Primary T helper cells fromperipheralblood	blood
2	chr6:79648800-79714400	Weak transcription	Gastric	stomach
3	chr6:79649000-79666200	Strong transcription	Rectal Mucosa Donor 29	rectum
4	chr6:79649000-79715200	Weak transcription	Stomach Mucosa	stomach
5	chr6:79649600-79681400	Strong transcription	Primary T cells fromperipheralblood	blood
6	chr6:79650400-79666200	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr6:79655400-79666000	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
8	chr6:79657400-79662800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr6:79658000-79664600	Strong transcription	Skeletal Muscle Male	skeletal muscle
10	chr6:79658000-79665400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr6:79658200-79663200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr6:79658400-79661800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr6:79658400-79664000	Strong transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr6:79658400-79664800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr6:79658600-79665400	Strong transcription	Osteobl	bone
16	chr6:79658600-79695000	Weak transcription	Pancreas	Pancrea
17	chr6:79658800-79661800	Strong transcription	Hela-S3	cervix
18	chr6:79658800-79664600	Strong transcription	Fetal Kidney	kidney
19	chr6:79658800-79681200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr6:79659000-79680000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr6:79659200-79663400	Strong transcription	A549	lung
22	chr6:79659200-79664800	Strong transcription	Colon Smooth Muscle	Colon
23	chr6:79659200-79665800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr6:79659200-79674600	Weak transcription	NHLF	lung
25	chr6:79659200-79680600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr6:79659200-79681400	Strong transcription	Adipose Nuclei	Adipose
27	chr6:79659200-79702800	Weak transcription	Psoas Muscle	Psoas
28	chr6:79659400-79661800	Strong transcription	NHDF-Ad	bronchial
29	chr6:79659400-79662200	Strong transcription	Fetal Lung	lung
30	chr6:79659400-79662800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr6:79659400-79663000	Strong transcription	HSMM	muscle
32	chr6:79659400-79664400	Strong transcription	Brain Germinal Matrix	brain
33	chr6:79659400-79664400	Strong transcription	Brain Inferior Temporal Lobe	brain
34	chr6:79659400-79665800	Strong transcription	HUVEC	blood vessel
35	chr6:79659400-79666200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr6:79659400-79666200	Strong transcription	Duodenum Mucosa	Duodenum
37	chr6:79659400-79672600	Weak transcription	Brain Angular Gyrus	brain
38	chr6:79659400-79674400	Weak transcription	Colonic Mucosa	Colon
39	chr6:79659400-79675000	Weak transcription	NHEK	skin
40	chr6:79659400-79680400	Strong transcription	Skeletal Muscle Female	skeletal muscle
41	chr6:79659400-79680600	Strong transcription	Duodenum Smooth Muscle	Duodenum
42	chr6:79659400-79681200	Strong transcription	Primary B cells from peripheral blood	blood
43	chr6:79659400-79681200	Strong transcription	Primary T helper cells PMA-I stimulated	--
44	chr6:79659400-79681200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
45	chr6:79659400-79702400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
46	chr6:79659400-79707000	Weak transcription	Esophagus	oesophagus
47	chr6:79659600-79662200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
48	chr6:79659600-79664600	Strong transcription	Fetal Brain Female	brain
49	chr6:79659600-79665000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
50	chr6:79659600-79665000	Strong transcription	HMEC	breast

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