Variant report

Variant	rs2287999
Chromosome Location	chr16:72059149-72059150
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 84 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10048111	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10048144	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10492813	0.82[CHB][hapmap]
rs10492814	0.82[CHB][hapmap]
rs1050361	0.83[CHB][hapmap]
rs1050363	0.87[CHB][hapmap]
rs10852511	0.88[CEU][hapmap];0.86[CHB][hapmap];0.90[JPT][hapmap]
rs11075924	0.87[CHB][hapmap]
rs12162087	0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs12443622	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12446480	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12917999	0.84[ASN][1000 genomes]
rs12924413	0.83[CHB][hapmap]
rs12930205	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12930702	0.89[ASN][1000 genomes]
rs12932845	0.85[CEU][hapmap];0.95[CHB][hapmap];0.81[JPT][hapmap]
rs12935266	0.81[CEU][hapmap]
rs16973716	0.80[JPT][hapmap]
rs2070937	0.92[CEU][hapmap];0.91[CHB][hapmap];0.81[JPT][hapmap];0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs2070939	0.86[CEU][hapmap];0.91[CHB][hapmap];0.81[JPT][hapmap]
rs2072141	0.83[CHB][hapmap]
rs2081222	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2081223	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2236765	0.81[ASN][1000 genomes]
rs2241411	0.85[CEU][hapmap];0.95[CHB][hapmap];0.85[JPT][hapmap]
rs2287998	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2288000	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2288001	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2288002	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs251033	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2550035	0.82[CHB][hapmap]
rs2550038	0.83[CHB][hapmap]
rs2550868	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2550869	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2550870	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2550876	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3764311	0.83[CHB][hapmap]
rs3764314	0.82[CHB][hapmap]
rs3812984	0.83[CHB][hapmap]
rs3812986	0.85[CEU][hapmap];0.95[CHB][hapmap];0.81[JPT][hapmap]
rs3844425	0.91[CHB][hapmap];0.80[JPT][hapmap]
rs3852781	0.83[CHB][hapmap]
rs3852782	0.86[CEU][hapmap];0.91[CHB][hapmap];0.81[JPT][hapmap]
rs3852784	0.81[CEU][hapmap];0.91[CHB][hapmap];0.80[JPT][hapmap]
rs3890860	0.85[ASN][1000 genomes]
rs3909541	0.87[CHB][hapmap]
rs4788458	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs4788609	0.85[CEU][hapmap];0.91[CHB][hapmap];0.81[JPT][hapmap]
rs4788610	0.86[CEU][hapmap];0.91[CHB][hapmap];0.81[JPT][hapmap]
rs56139130	0.83[ASN][1000 genomes]
rs6499557	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6499562	0.80[JPT][hapmap]
rs7185840	0.85[ASN][1000 genomes]
rs7188962	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7189115	0.83[ASN][1000 genomes]
rs7189591	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7190994	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7199261	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7200854	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7201643	0.92[CEU][hapmap];0.91[CHB][hapmap];0.81[JPT][hapmap];0.86[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7201866	0.86[ASN][1000 genomes]
rs7202268	0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs7203426	0.92[CEU][hapmap];0.91[CHB][hapmap];0.81[JPT][hapmap];0.85[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs7203821	0.92[CEU][hapmap];0.95[CHB][hapmap];0.81[JPT][hapmap];0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7350838	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7940	0.86[CEU][hapmap];0.96[CHB][hapmap];0.86[JPT][hapmap]
rs8044868	0.80[JPT][hapmap]
rs8052408	0.80[JPT][hapmap]
rs8053907	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8059437	0.85[CEU][hapmap];0.95[CHB][hapmap];0.85[JPT][hapmap]
rs8182213	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9924964	0.84[CEU][hapmap];0.89[CHB][hapmap];0.86[ASN][1000 genomes]
rs9926927	0.82[CHB][hapmap]
rs9927526	0.91[CHB][hapmap]
rs9928157	0.85[CEU][hapmap];0.96[CHB][hapmap];0.86[JPT][hapmap]
rs9932951	0.85[CEU][hapmap];0.95[CHB][hapmap];0.85[JPT][hapmap];0.91[ASN][1000 genomes]
rs9938382	0.83[AMR][1000 genomes];0.89[ASN][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	nsv948468	chr16:71727571-72651914	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	89 gene(s)	inside rSNPs	diseases
2	nsv1055854	chr16:71922144-72082886	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv833273	chr16:71971805-72152854	Weak transcription Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
4	esv2758430	chr16:71976344-72274347	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
5	esv2758654	chr16:71976344-72274347	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
6	nsv428329	chr16:71976344-72274347	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
7	esv1843253	chr16:72042428-72059149	Strong transcription Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:72043000-72063000	Weak transcription	Small Intestine	intestine
2	chr16:72043200-72061200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr16:72043200-72062800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr16:72043200-72069800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr16:72043200-72069800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr16:72043600-72075200	Weak transcription	Fetal Brain Male	brain
7	chr16:72045600-72059400	Strong transcription	HUES48 Cell Line	embryonic stem cell
8	chr16:72045600-72060200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr16:72045600-72060400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr16:72045600-72060600	Strong transcription	HUES64 Cell Line	embryonic stem cell
11	chr16:72045600-72062200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr16:72045600-72062400	Strong transcription	Dnd41	blood
13	chr16:72045800-72060200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr16:72045800-72060400	Strong transcription	Primary T helper cells fromperipheralblood	blood
15	chr16:72045800-72060400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr16:72045800-72064200	Strong transcription	Fetal Stomach	stomach
17	chr16:72046000-72060200	Strong transcription	Cortex derived primary cultured neurospheres	brain
18	chr16:72046000-72064000	Strong transcription	Primary T cells from cord blood	blood
19	chr16:72046400-72060200	Strong transcription	Primary monocytes fromperipheralblood	blood
20	chr16:72046400-72062200	Strong transcription	Primary T helper cells PMA-I stimulated	--
21	chr16:72047800-72062000	Strong transcription	Thymus	Thymus
22	chr16:72047800-72062200	Strong transcription	Stomach Smooth Muscle	stomach
23	chr16:72048000-72060400	Strong transcription	Primary T cells fromperipheralblood	blood
24	chr16:72048000-72063000	Weak transcription	NH-A	brain
25	chr16:72048200-72060400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
26	chr16:72048600-72059800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
27	chr16:72048600-72060200	Strong transcription	HUES6 Cell Line	embryonic stem cell
28	chr16:72048600-72063800	Strong transcription	Fetal Muscle Trunk	muscle
29	chr16:72048800-72060600	Weak transcription	Fetal Heart	heart
30	chr16:72049000-72060200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
31	chr16:72049200-72062000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
32	chr16:72049600-72062600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
33	chr16:72050600-72062600	Strong transcription	Fetal Muscle Leg	muscle
34	chr16:72051000-72062600	Strong transcription	Left Ventricle	heart
35	chr16:72051200-72060200	Strong transcription	Rectal Mucosa Donor 29	rectum
36	chr16:72051400-72061000	Weak transcription	HMEC	breast
37	chr16:72051400-72063800	Strong transcription	Skeletal Muscle Female	skeletal muscle
38	chr16:72051400-72078600	Weak transcription	Fetal Kidney	kidney
39	chr16:72052600-72060200	Strong transcription	Adipose Nuclei	Adipose
40	chr16:72052800-72065200	Genic enhancers	Liver	Liver
41	chr16:72054000-72060200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
42	chr16:72054200-72060600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr16:72054400-72059800	Strong transcription	Duodenum Smooth Muscle	Duodenum
44	chr16:72054400-72060000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr16:72054400-72060200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr16:72054400-72060200	Strong transcription	Duodenum Mucosa	Duodenum
47	chr16:72054400-72060200	Strong transcription	Gastric	stomach
48	chr16:72054400-72060400	Strong transcription	Fetal Intestine Large	intestine
49	chr16:72054400-72061600	Strong transcription	Fetal Intestine Small	intestine
50	chr16:72054400-72062400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links