Variant report

Variant	rs6498974
Chromosome Location	chr16:65105984-65105985
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs1006857	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10500507	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16968386	0.87[AFR][1000 genomes]
rs16968437	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16968457	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16968465	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs16968466	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16968468	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16968474	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs60684738	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6498973	0.88[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs74026248	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74026252	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs8049948	0.90[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs8056507	0.88[AFR][1000 genomes];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948640	chr16:64859061-65112790	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
2	nsv833260	chr16:65050647-65218759	Enhancers Strong transcription Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv1831	chr16:65071976-65106105	Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:65095000-65113400	Weak transcription	Lung	lung
2	chr16:65095800-65152000	Weak transcription	Fetal Intestine Large	intestine
3	chr16:65103800-65108200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr16:65104200-65106000	Enhancers	Fetal Brain Male	brain
5	chr16:65104200-65107000	Genic enhancers	Fetal Lung	lung
6	chr16:65104400-65106200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr16:65104600-65106000	Active TSS	Brain Inferior Temporal Lobe	brain
8	chr16:65104600-65106200	Active TSS	Brain Substantia Nigra	brain
9	chr16:65104600-65106400	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr16:65104600-65106400	Flanking Active TSS	Stomach Smooth Muscle	stomach
11	chr16:65104600-65106800	Enhancers	Cortex derived primary cultured neurospheres	brain
12	chr16:65104600-65116200	Weak transcription	Fetal Intestine Small	intestine
13	chr16:65104800-65106000	Active TSS	Brain Anterior Caudate	brain
14	chr16:65104800-65106200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr16:65104800-65106200	Flanking Active TSS	Adipose Nuclei	Adipose
16	chr16:65104800-65106200	Enhancers	Fetal Brain Female	brain
17	chr16:65104800-65106200	Flanking Active TSS	Fetal Muscle Leg	muscle
18	chr16:65104800-65106200	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
19	chr16:65104800-65106400	Active TSS	Brain Cingulate Gyrus	brain
20	chr16:65104800-65106400	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
21	chr16:65104800-65106400	Flanking Active TSS	HSMMtube	muscle
22	chr16:65104800-65106800	Genic enhancers	Fetal Stomach	stomach
23	chr16:65105000-65106000	Transcr. at gene 5' and 3'	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr16:65105000-65106000	Flanking Active TSS	Ovary	ovary
25	chr16:65105000-65106200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr16:65105000-65106200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr16:65105000-65106200	Flanking Active TSS	NHDF-Ad	bronchial
28	chr16:65105000-65106400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
29	chr16:65105000-65106400	Enhancers	Colonic Mucosa	Colon
30	chr16:65105000-65106400	Flanking Active TSS	HSMM	muscle
31	chr16:65105000-65106400	Flanking Active TSS	NHLF	lung
32	chr16:65105200-65106000	Enhancers	Pancreas	Pancrea
33	chr16:65105200-65106000	Enhancers	A549	lung
34	chr16:65105200-65106200	Transcr. at gene 5' and 3'	Osteobl	bone
35	chr16:65105200-65106400	Enhancers	Right Ventricle	heart
36	chr16:65105200-65106400	Enhancers	Spleen	Spleen
37	chr16:65105200-65113400	Weak transcription	Fetal Kidney	kidney
38	chr16:65105400-65106200	Enhancers	Placenta	Placenta
39	chr16:65105400-65107000	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chr16:65105400-65109600	Weak transcription	Placenta Amnion	Placenta Amnion
41	chr16:65105400-65117200	Weak transcription	HMEC	breast
42	chr16:65105600-65106000	Active TSS	Duodenum Smooth Muscle	Duodenum
43	chr16:65105600-65106200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
44	chr16:65105600-65106200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
45	chr16:65105600-65106200	Transcr. at gene 5' and 3'	Fetal Muscle Trunk	muscle
46	chr16:65105600-65106400	Genic enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr16:65105600-65106400	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
48	chr16:65105600-65106400	Flanking Active TSS	Brain Germinal Matrix	brain
49	chr16:65105600-65107600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
50	chr16:65105600-65108200	Weak transcription	Rectal Mucosa Donor 31	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links