Variant report

Variant	rs55881040
Chromosome Location	chr2:189887562-189887563
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs12886	1.00[ASN][1000 genomes]
rs55749146	1.00[ASN][1000 genomes]
rs56339059	1.00[ASN][1000 genomes]
rs59291399	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59397955	0.85[EUR][1000 genomes]
rs59631824	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73978837	1.00[ASN][1000 genomes]
rs73981481	1.00[ASN][1000 genomes]
rs73981485	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73981487	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73981488	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73981489	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7419916	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7582435	0.83[ASN][1000 genomes]
rs7586	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7599216	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv875610	chr2:189796272-189904674	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	nsv533029	chr2:189812229-190554339	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:189876200-189898600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr2:189877400-189897400	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr2:189880200-189895200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr2:189881200-189895000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr2:189883600-189887600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr2:189885200-189890200	Weak transcription	HSMM	muscle
7	chr2:189885200-189895600	Weak transcription	HSMMtube	muscle
8	chr2:189885200-189898800	Weak transcription	Colon Smooth Muscle	Colon
9	chr2:189885800-189895600	Weak transcription	Fetal Muscle Trunk	muscle
10	chr2:189886200-189888000	Enhancers	Adipose Nuclei	Adipose
11	chr2:189886200-189888200	Enhancers	NHLF	lung
12	chr2:189886400-189887600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr2:189886400-189888000	Enhancers	Fetal Muscle Leg	muscle
14	chr2:189886600-189888000	Enhancers	Ovary	ovary
15	chr2:189886600-189895800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr2:189886800-189887600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr2:189887200-189887600	Enhancers	Muscle Satellite Cultured Cells	--
18	chr2:189887200-189889400	Weak transcription	Aorta	Aorta
19	chr2:189887200-189889400	Weak transcription	Fetal Stomach	stomach
20	chr2:189887200-189891000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr2:189887200-189895800	Weak transcription	Fetal Lung	lung
22	chr2:189887400-189887600	Enhancers	NHDF-Ad	bronchial
23	chr2:189887400-189888000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr2:189887400-189888000	Enhancers	Osteobl	bone
25	chr2:189887400-189888400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr2:189887400-189891200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr2:189887400-189895400	Weak transcription	NH-A	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links