Variant report

Variant	rs9938115
Chromosome Location	chr16:48352508-48352509
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs12102896	0.86[AFR][1000 genomes]
rs13332870	1.00[AMR][1000 genomes]
rs13335175	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13336203	1.00[AMR][1000 genomes]
rs13336441	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13336832	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13337923	1.00[AMR][1000 genomes]
rs28361908	1.00[AMR][1000 genomes]
rs28379458	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28473019	1.00[AMR][1000 genomes]
rs28539217	1.00[AMR][1000 genomes]
rs28599555	1.00[AMR][1000 genomes]
rs28661941	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28848294	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9889104	1.00[AMR][1000 genomes]
rs9922477	1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9926437	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9926749	1.00[ASW][hapmap];1.00[AMR][1000 genomes]
rs9927124	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9928527	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs9929780	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9931267	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs9931866	1.00[ASW][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs9932677	1.00[AMR][1000 genomes]
rs9933958	1.00[AMR][1000 genomes]
rs9934175	1.00[ASW][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs9934459	1.00[ASW][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9934918	1.00[AMR][1000 genomes]
rs9936494	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9936636	1.00[AMR][1000 genomes]
rs9936892	1.00[ASW][hapmap];1.00[AMR][1000 genomes]
rs9938350	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs9938594	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9940237	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9941354	1.00[AMR][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	nsv1061316	chr16:48264175-48594219	Weak transcription Strong transcription Bivalent Enhancer Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
2	esv1821072	chr16:48268318-48504364	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv833219	chr16:48290595-48459301	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv1061708	chr16:48304343-48482594	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
5	nsv542917	chr16:48304343-48482594	Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
6	esv2758424	chr16:48329437-48479754	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
7	esv2758645	chr16:48329437-48479754	ZNF genes & repeats Enhancers Strong transcription Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:48330400-48354600	Weak transcription	Stomach Mucosa	stomach
2	chr16:48334800-48361400	Strong transcription	Liver	Liver
3	chr16:48338600-48352600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr16:48338600-48352600	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr16:48338600-48381200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr16:48339400-48368000	Weak transcription	Colonic Mucosa	Colon
7	chr16:48342200-48368000	Weak transcription	Rectal Smooth Muscle	rectum
8	chr16:48343400-48375600	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr16:48344600-48368200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr16:48345800-48352600	Weak transcription	Fetal Heart	heart
11	chr16:48345800-48363200	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr16:48346000-48355000	Weak transcription	Psoas Muscle	Psoas
13	chr16:48346600-48364200	Weak transcription	Brain Cingulate Gyrus	brain
14	chr16:48346600-48368200	Weak transcription	Colon Smooth Muscle	Colon
15	chr16:48346800-48368200	Weak transcription	A549	lung
16	chr16:48347000-48353000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr16:48347000-48368000	Weak transcription	Hela-S3	cervix
18	chr16:48347000-48368000	Weak transcription	K562	blood
19	chr16:48347000-48368200	Weak transcription	Placenta	Placenta
20	chr16:48347000-48368200	Weak transcription	Gastric	stomach
21	chr16:48347000-48368400	Weak transcription	Esophagus	oesophagus
22	chr16:48347400-48360800	Weak transcription	Fetal Intestine Small	intestine
23	chr16:48347400-48368200	Weak transcription	Rectal Mucosa Donor 31	rectum
24	chr16:48347600-48360200	Weak transcription	Brain Substantia Nigra	brain
25	chr16:48347600-48364200	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr16:48347600-48364800	Weak transcription	Pancreas	Pancrea
27	chr16:48347600-48367400	Weak transcription	Fetal Muscle Trunk	muscle
28	chr16:48347600-48367800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr16:48347600-48368200	Weak transcription	Aorta	Aorta
30	chr16:48347600-48384800	Weak transcription	Fetal Kidney	kidney
31	chr16:48347800-48355600	Weak transcription	Fetal Muscle Leg	muscle
32	chr16:48347800-48356200	Weak transcription	Fetal Brain Female	brain
33	chr16:48347800-48367600	Weak transcription	Brain Germinal Matrix	brain
34	chr16:48347800-48367600	Weak transcription	Stomach Smooth Muscle	stomach
35	chr16:48349400-48352600	Weak transcription	Duodenum Smooth Muscle	Duodenum
36	chr16:48349400-48355800	Weak transcription	Fetal Intestine Large	intestine
37	chr16:48349600-48354600	Weak transcription	HepG2	liver
38	chr16:48349600-48355200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
39	chr16:48350600-48352600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
40	chr16:48350600-48352600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
41	chr16:48350600-48352800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr16:48350600-48352800	Enhancers	Osteobl	bone
43	chr16:48350600-48353200	Enhancers	ES-I3 Cell Line	embryonic stem cell
44	chr16:48350800-48352600	Enhancers	Primary T helper naive cells from peripheral blood	blood
45	chr16:48350800-48352600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr16:48350800-48352800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
47	chr16:48350800-48352800	Enhancers	HUES6 Cell Line	embryonic stem cell
48	chr16:48350800-48352800	Enhancers	HSMMtube	muscle
49	chr16:48350800-48353000	Enhancers	NH-A	brain
50	chr16:48350800-48353600	Enhancers	HUVEC	blood vessel

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