Variant report

Variant	rs61288876
Chromosome Location	chr1:93054708-93054709
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1003209	1.00[ASN][1000 genomes]
rs10127800	1.00[ASN][1000 genomes]
rs10159031	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10465755	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12563400	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12564335	1.00[ASN][1000 genomes]
rs12564537	0.87[AMR][1000 genomes]
rs12564911	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12565227	0.87[AMR][1000 genomes]
rs12565259	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12566527	0.84[ASN][1000 genomes]
rs12568629	0.84[ASN][1000 genomes]
rs17131655	0.87[AMR][1000 genomes]
rs2151575	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41286813	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs55995837	0.87[AMR][1000 genomes]
rs56144352	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56172716	0.89[EUR][1000 genomes]
rs56185219	0.81[AMR][1000 genomes]
rs56695578	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs57782462	0.89[EUR][1000 genomes]
rs59459727	0.89[EUR][1000 genomes]
rs59925050	0.87[AMR][1000 genomes]
rs60855457	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61457032	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6699723	0.80[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs74101167	0.84[ASN][1000 genomes]
rs74101184	0.89[EUR][1000 genomes]
rs74101186	0.89[EUR][1000 genomes]
rs74101190	0.89[EUR][1000 genomes]
rs74101199	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs74101322	0.87[AMR][1000 genomes]
rs74101363	0.81[AMR][1000 genomes]
rs74102906	0.89[EUR][1000 genomes]
rs74102921	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74102923	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74102948	0.89[EUR][1000 genomes]
rs74102953	0.89[EUR][1000 genomes]
rs7535171	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7548287	0.87[AMR][1000 genomes]
rs969698	0.81[AFR][1000 genomes];0.87[AMR][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	nsv523354	chr1:92931263-93064823	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1004381	chr1:92968173-93064823	Weak transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	nsv830603	chr1:93003657-93172206	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:92983600-93066200	Weak transcription	Adipose Nuclei	Adipose
2	chr1:92994600-93066000	Weak transcription	Placenta	Placenta
3	chr1:93004400-93070000	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr1:93014800-93100200	Weak transcription	Right Ventricle	heart
5	chr1:93017000-93066000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr1:93024200-93056000	Weak transcription	Fetal Heart	heart
7	chr1:93026000-93091800	Weak transcription	Hela-S3	cervix
8	chr1:93027400-93066000	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr1:93030000-93082200	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr1:93034400-93081000	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr1:93041600-93059000	Weak transcription	Brain Angular Gyrus	brain
12	chr1:93043200-93070000	Weak transcription	Primary B cells from peripheral blood	blood
13	chr1:93045800-93070000	Weak transcription	Duodenum Mucosa	Duodenum
14	chr1:93046800-93070200	Weak transcription	Brain Anterior Caudate	brain
15	chr1:93050200-93081200	Weak transcription	HSMMtube	muscle
16	chr1:93050600-93069400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr1:93050600-93082400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr1:93050600-93082600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr1:93051000-93055000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr1:93051000-93061400	Weak transcription	Monocytes-CD14+_RO01746	blood
21	chr1:93051600-93067200	Weak transcription	HUVEC	blood vessel
22	chr1:93051800-93082000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr1:93052000-93066600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr1:93052000-93069800	Weak transcription	Liver	Liver
25	chr1:93052000-93070000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr1:93052000-93119400	Weak transcription	NHEK	skin
27	chr1:93053200-93070000	Weak transcription	Colonic Mucosa	Colon
28	chr1:93053400-93066600	Weak transcription	Primary T cells from cord blood	blood
29	chr1:93053600-93166200	Weak transcription	Placenta Amnion	Placenta Amnion
30	chr1:93054400-93054800	ZNF genes & repeats	HSMM	muscle
31	chr1:93054400-93055000	Strong transcription	Fetal Lung	lung
32	chr1:93054400-93055200	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
33	chr1:93054400-93055400	Strong transcription	Left Ventricle	heart
34	chr1:93054600-93054800	ZNF genes & repeats	Primary B cells from cord blood	blood
35	chr1:93054600-93054800	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
36	chr1:93054600-93055000	ZNF genes & repeats	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr1:93054600-93055000	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
38	chr1:93054600-93055000	ZNF genes & repeats	Aorta	Aorta
39	chr1:93054600-93055000	ZNF genes & repeats	Pancreas	Pancrea
40	chr1:93054600-93055200	ZNF genes & repeats	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
41	chr1:93054600-93055200	ZNF genes & repeats	Fetal Intestine Small	intestine
42	chr1:93054600-93055200	ZNF genes & repeats	Lung	lung
43	chr1:93054600-93055200	ZNF genes & repeats	Ovary	ovary
44	chr1:93054600-93055400	ZNF genes & repeats	Esophagus	oesophagus
45	chr1:93054600-93055400	ZNF genes & repeats	Fetal Intestine Large	intestine
46	chr1:93054600-93055400	ZNF genes & repeats	Fetal Stomach	stomach
47	chr1:93054600-93055600	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
48	chr1:93054600-93055600	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
49	chr1:93054600-93055800	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
50	chr1:93054600-93055800	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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