Variant report

Variant	rs28033
Chromosome Location	chr5:53474849-53474850
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10940361	0.87[YRI][hapmap]
rs13153747	0.91[YRI][hapmap]
rs13173294	0.88[YRI][hapmap]
rs1345815	0.81[CHD][hapmap]
rs154020	0.86[CHB][hapmap];0.83[ASN][1000 genomes]
rs156825	0.93[CHB][hapmap]
rs156830	0.93[CHB][hapmap];0.87[CHD][hapmap]
rs16882414	0.83[CHD][hapmap]
rs16882451	0.86[CHB][hapmap];0.83[CHD][hapmap]
rs202168	0.93[CHB][hapmap];0.87[CHD][hapmap]
rs244643	1.00[CHB][hapmap]
rs2547538	1.00[CHB][hapmap]
rs25853	0.95[ASN][1000 genomes]
rs26608	0.93[CHB][hapmap];0.90[CHD][hapmap]
rs26609	0.93[CHB][hapmap];0.90[CHD][hapmap]
rs26610	0.93[CHB][hapmap];0.83[ASN][1000 genomes]
rs26775	0.93[CHB][hapmap];1.00[CHD][hapmap];0.87[ASN][1000 genomes]
rs26776	0.85[ASN][1000 genomes]
rs27375	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs277323	0.87[CHB][hapmap];0.90[CHD][hapmap]
rs277329	0.87[CHB][hapmap];0.90[CHD][hapmap]
rs277330	0.93[CHB][hapmap]
rs27776	0.87[CHB][hapmap];0.83[ASN][1000 genomes]
rs278065	0.93[CHB][hapmap];0.90[CHD][hapmap]
rs27897	0.93[CHB][hapmap]
rs279743	1.00[CHB][hapmap];0.90[CHD][hapmap]
rs279744	1.00[CHB][hapmap];0.93[CHD][hapmap]
rs27992	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs35006	1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs35545340	0.81[ASN][1000 genomes]
rs3797254	0.86[CHB][hapmap];0.83[MEX][hapmap]
rs3797255	0.84[CHD][hapmap]
rs3797261	0.88[YRI][hapmap]
rs3797267	0.87[YRI][hapmap]
rs3797269	0.88[YRI][hapmap]
rs3843451	0.87[YRI][hapmap]
rs3843452	0.86[CHB][hapmap]
rs464888	0.87[CHB][hapmap];0.88[JPT][hapmap];0.91[ASN][1000 genomes]
rs4865808	0.86[CHB][hapmap]
rs4865809	0.86[CHB][hapmap];0.86[CHD][hapmap]
rs62372178	0.80[EUR][1000 genomes]
rs682103	1.00[CHB][hapmap];0.87[CHD][hapmap]
rs6866862	0.86[CHB][hapmap]
rs700915	0.93[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1032632	chr5:52667145-53655624	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv880713	chr5:53198059-53906103	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	nsv881265	chr5:53305742-53504764	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
4	nsv880619	chr5:53305742-53525671	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
5	nsv881616	chr5:53305742-53639975	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	11 gene(s)	inside rSNPs	diseases
6	nsv881018	chr5:53305742-53744849	Flanking Active TSS ZNF genes & repeats Active TSS Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	11 gene(s)	inside rSNPs	diseases
7	nsv880734	chr5:53305742-53770217	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
8	nsv881161	chr5:53305742-53815495	Enhancers Weak transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
9	nsv881600	chr5:53305742-53823285	Active TSS Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
10	nsv598176	chr5:53311502-53739530	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	11 gene(s)	inside rSNPs	diseases
11	nsv880773	chr5:53311918-53815495	Weak transcription Active TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
12	nsv1024303	chr5:53317896-53788276	Flanking Bivalent TSS/Enh Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
13	nsv1029224	chr5:53317896-53812899	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
14	nsv949098	chr5:53317990-53816782	Active TSS Enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
15	nsv1020517	chr5:53324930-53759046	Weak transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
16	nsv1017768	chr5:53326385-53752165	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
17	nsv1032352	chr5:53327170-53762973	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
18	nsv598177	chr5:53333477-53755208	Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
19	nsv881056	chr5:53368869-53744849	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	10 gene(s)	inside rSNPs	diseases
20	nsv881408	chr5:53386267-53815495	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:53433000-53480800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
2	chr5:53451400-53476200	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr5:53456000-53483000	Weak transcription	Right Ventricle	heart
4	chr5:53461800-53475000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr5:53463400-53476200	Weak transcription	NHDF-Ad	bronchial
6	chr5:53466400-53476600	Weak transcription	Monocytes-CD14+_RO01746	blood
7	chr5:53466400-53484000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr5:53466800-53489000	Weak transcription	K562	blood
9	chr5:53467200-53483200	Weak transcription	Primary T cells from cord blood	blood
10	chr5:53467800-53475000	Weak transcription	Pancreas	Pancrea
11	chr5:53469800-53482000	Weak transcription	Psoas Muscle	Psoas
12	chr5:53471800-53476800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr5:53472600-53475000	Weak transcription	Gastric	stomach
14	chr5:53472600-53475600	Enhancers	Fetal Intestine Large	intestine
15	chr5:53472800-53475200	Enhancers	Stomach Mucosa	stomach
16	chr5:53472800-53475400	Enhancers	Rectal Mucosa Donor 29	rectum
17	chr5:53472800-53475600	Enhancers	Fetal Intestine Small	intestine
18	chr5:53472800-53476200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr5:53473000-53476000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr5:53473000-53476200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr5:53473200-53475400	Enhancers	Fetal Lung	lung
22	chr5:53473200-53475600	Enhancers	Colon Smooth Muscle	Colon
23	chr5:53473400-53475200	Enhancers	Rectal Mucosa Donor 31	rectum
24	chr5:53473600-53475600	Enhancers	Duodenum Mucosa	Duodenum
25	chr5:53473800-53476200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr5:53474000-53475000	Weak transcription	Right Atrium	heart
27	chr5:53474000-53476200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr5:53474000-53481600	Weak transcription	Pancreatic Islets	Pancreatic Islet
29	chr5:53474200-53475000	Weak transcription	Stomach Smooth Muscle	stomach
30	chr5:53474200-53476600	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr5:53474200-53490800	Weak transcription	Rectal Smooth Muscle	rectum
32	chr5:53474400-53476200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
33	chr5:53474400-53480600	Weak transcription	Small Intestine	intestine
34	chr5:53474600-53475000	Weak transcription	Left Ventricle	heart
35	chr5:53474600-53475600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr5:53474600-53475600	Enhancers	Fetal Heart	heart
37	chr5:53474600-53476600	Weak transcription	Cortex derived primary cultured neurospheres	brain
38	chr5:53474600-53477600	Enhancers	HUES64 Cell Line	embryonic stem cell
39	chr5:53474800-53475600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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