Variant report

Variant	rs59925050
Chromosome Location	chr1:93193210-93193211
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10158801	0.82[EUR][1000 genomes]
rs10159031	0.87[AMR][1000 genomes]
rs10465755	0.87[AMR][1000 genomes]
rs10465757	1.00[EUR][1000 genomes]
rs12563229	1.00[ASN][1000 genomes]
rs12564537	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12564911	0.87[AMR][1000 genomes]
rs12565227	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12565259	0.87[AMR][1000 genomes]
rs12566186	1.00[ASN][1000 genomes]
rs13374365	1.00[ASN][1000 genomes]
rs17131655	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2151575	0.80[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs2391198	1.00[ASN][1000 genomes]
rs28550182	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41286813	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4130290	0.89[EUR][1000 genomes]
rs4442373	0.89[EUR][1000 genomes]
rs4847388	0.89[EUR][1000 genomes]
rs55995837	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56185219	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56695578	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56764656	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs59552478	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs60842823	0.89[EUR][1000 genomes]
rs60855457	0.87[AMR][1000 genomes]
rs61259042	0.89[EUR][1000 genomes]
rs61288876	0.87[AMR][1000 genomes]
rs6669107	0.89[EUR][1000 genomes]
rs6699723	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74101199	0.87[AMR][1000 genomes]
rs74101310	0.89[EUR][1000 genomes]
rs74101322	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74101354	0.89[EUR][1000 genomes]
rs74101356	0.89[EUR][1000 genomes]
rs74101362	0.89[EUR][1000 genomes]
rs74101363	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74102921	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs74102923	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs7535171	0.87[AMR][1000 genomes]
rs7535486	0.89[EUR][1000 genomes]
rs7548287	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs969698	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1802611	chr1:93090476-93219907	Active TSS Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv997898	chr1:93167128-93228156	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1008602	chr1:93176811-93640808	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
4	esv3340706	chr1:93187980-93207933	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:93098400-93205400	Weak transcription	NHLF	lung
2	chr1:93123600-93213400	Weak transcription	Gastric	stomach
3	chr1:93155800-93213400	Weak transcription	Lung	lung
4	chr1:93161000-93197400	Weak transcription	Primary B cells from cord blood	blood
5	chr1:93161000-93197800	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr1:93161000-93199000	Weak transcription	Left Ventricle	heart
7	chr1:93174400-93202000	Weak transcription	Fetal Heart	heart
8	chr1:93175800-93199400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr1:93177800-93197600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
10	chr1:93181800-93196600	Weak transcription	HepG2	liver
11	chr1:93182600-93200000	Weak transcription	Primary B cells from peripheral blood	blood
12	chr1:93185400-93194200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr1:93186600-93205600	Weak transcription	Ovary	ovary
14	chr1:93186800-93197800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr1:93186800-93213400	Weak transcription	K562	blood
16	chr1:93188400-93202000	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr1:93188400-93205400	Weak transcription	Small Intestine	intestine
18	chr1:93188600-93199200	Weak transcription	Rectal Mucosa Donor 29	rectum
19	chr1:93188600-93203800	Weak transcription	HMEC	breast
20	chr1:93188800-93201000	Weak transcription	Stomach Smooth Muscle	stomach
21	chr1:93189000-93197800	Weak transcription	Fetal Muscle Trunk	muscle
22	chr1:93189000-93203800	Weak transcription	Hela-S3	cervix
23	chr1:93189000-93213400	Weak transcription	Fetal Lung	lung
24	chr1:93189400-93204200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
25	chr1:93189400-93206000	Weak transcription	Brain Anterior Caudate	brain
26	chr1:93189800-93199200	Weak transcription	NH-A	brain
27	chr1:93190000-93221800	Weak transcription	Rectal Smooth Muscle	rectum
28	chr1:93190200-93198000	Weak transcription	Primary hematopoietic stem cells	blood
29	chr1:93190200-93220000	Weak transcription	Fetal Muscle Leg	muscle
30	chr1:93190400-93198400	Weak transcription	Fetal Stomach	stomach
31	chr1:93190400-93199200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr1:93190600-93197000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
33	chr1:93190800-93197800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr1:93191000-93193800	Weak transcription	Monocytes-CD14+_RO01746	blood
35	chr1:93191000-93195600	Weak transcription	Fetal Intestine Small	intestine
36	chr1:93191000-93195800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr1:93191200-93194200	Weak transcription	Primary monocytes fromperipheralblood	blood
38	chr1:93191200-93221600	Weak transcription	Fetal Intestine Large	intestine
39	chr1:93191600-93199400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
40	chr1:93192400-93221200	Weak transcription	Rectal Mucosa Donor 31	rectum
41	chr1:93192400-93226400	Weak transcription	Esophagus	oesophagus
42	chr1:93193000-93200600	Weak transcription	Brain Hippocampus Middle	brain
43	chr1:93193000-93203800	Weak transcription	Cortex derived primary cultured neurospheres	brain
44	chr1:93193000-93223800	Weak transcription	Duodenum Mucosa	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links