Variant report

Variant	rs2552996
Chromosome Location	chr2:173722032-173722033
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 6 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs12612612	0.83[CHB][hapmap]
rs2113808	0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs2357948	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2552999	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2884346	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.85[AFR][1000 genomes];0.96[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533927	chr2:173161637-173796894	Active TSS Enhancers Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:173689200-173723200	Weak transcription	Esophagus	oesophagus
2	chr2:173714800-173722200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr2:173717600-173722400	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr2:173719800-173724400	Weak transcription	Brain Cingulate Gyrus	brain
5	chr2:173720000-173723000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr2:173720000-173723200	Weak transcription	Brain Anterior Caudate	brain
7	chr2:173721200-173722800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr2:173721200-173723000	Enhancers	Duodenum Mucosa	Duodenum
9	chr2:173721400-173722200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr2:173721400-173722800	Enhancers	NHEK	skin
11	chr2:173721400-173724000	Enhancers	Hela-S3	cervix
12	chr2:173721600-173726000	Weak transcription	Gastric	stomach
13	chr2:173722000-173724200	Weak transcription	Fetal Intestine Small	intestine
14	chr2:173722000-173724400	Weak transcription	Fetal Intestine Large	intestine

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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