Variant report

Variant	rs55798872
Chromosome Location	chr4:147244953-147244954
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10008275	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10010528	0.94[ASN][1000 genomes]
rs10013722	0.94[ASN][1000 genomes]
rs10027135	0.90[ASN][1000 genomes]
rs11735261	0.90[ASN][1000 genomes]
rs11736003	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11737121	0.88[ASN][1000 genomes]
rs11939345	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11947781	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17021396	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2200474	0.88[ASN][1000 genomes]
rs28521842	0.94[ASN][1000 genomes]
rs28625764	0.90[ASN][1000 genomes]
rs4835033	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4835292	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4835294	0.90[ASN][1000 genomes]
rs4835296	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4835297	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4835299	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs57713263	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6846294	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6846584	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6846846	0.88[ASN][1000 genomes]
rs6857911	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9784436	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9784437	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9999381	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv461675	chr4:147116864-147768206	Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
2	nsv595651	chr4:147116864-147768206	Weak transcription Enhancers Genic enhancers Bivalent/Poised TSS Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
3	esv3451660	chr4:147225135-147271246	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	esv3443192	chr4:147225234-147271217	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers ZNF genes & repeats	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	esv3468025	chr4:147225279-147271172	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	esv3468026	chr4:147225279-147271172	Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv1033640	chr4:147232217-147531881	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
8	esv3467415	chr4:147240635-147246173	Weak transcription Active TSS Strong transcription ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases
9	esv3467416	chr4:147240635-147246173	Strong transcription Weak transcription ZNF genes & repeats Active TSS	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:147201000-147249600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr4:147208200-147247000	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr4:147208400-147249200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr4:147208400-147254600	Weak transcription	Gastric	stomach
5	chr4:147208600-147254800	Weak transcription	Adipose Nuclei	Adipose
6	chr4:147209200-147249000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr4:147209400-147245600	Weak transcription	Primary T helper cells fromperipheralblood	blood
8	chr4:147212800-147264200	Weak transcription	Primary hematopoietic stem cells	blood
9	chr4:147215600-147254800	Weak transcription	Primary T cells from cord blood	blood
10	chr4:147225600-147245600	Weak transcription	Primary B cells from cord blood	blood
11	chr4:147229600-147257400	Weak transcription	Ovary	ovary
12	chr4:147230800-147245600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr4:147233000-147255000	Weak transcription	Aorta	Aorta
14	chr4:147233200-147254400	Weak transcription	GM12878-XiMat	blood
15	chr4:147234600-147249000	Weak transcription	Lung	lung
16	chr4:147235200-147245600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr4:147235200-147249600	Weak transcription	Left Ventricle	heart
18	chr4:147237200-147245600	Weak transcription	Liver	Liver
19	chr4:147241800-147255200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
20	chr4:147241800-147284800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr4:147242800-147255000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
22	chr4:147243000-147255000	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr4:147243200-147254800	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr4:147243400-147245600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr4:147244000-147245600	Weak transcription	Primary T helper cells PMA-I stimulated	--
26	chr4:147244000-147251000	Weak transcription	Monocytes-CD14+_RO01746	blood
27	chr4:147244200-147255200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
28	chr4:147244400-147245600	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr4:147244400-147247400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr4:147244600-147249600	Weak transcription	NH-A	brain

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