Variant report

Variant	rs10399875
Chromosome Location	chr1:173309542-173309543
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs1418192	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs16845740	1.00[CEU][hapmap]
rs1832846	1.00[EUR][1000 genomes]
rs2422342	1.00[CEU][hapmap]
rs4916330	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6681901	1.00[CEU][hapmap];0.81[YRI][hapmap];0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6689832	1.00[CEU][hapmap]
rs6700353	1.00[CEU][hapmap]
rs7529929	1.00[CEU][hapmap]
rs947503	1.00[CEU][hapmap]

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	nsv831915	chr1:173268424-173482157	Flanking Active TSS Active TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
2	nsv523009	chr1:173305632-173324296	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:173299200-173310000	Weak transcription	HSMMtube	muscle
2	chr1:173299200-173311200	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr1:173299200-173316600	Weak transcription	Brain Angular Gyrus	brain
4	chr1:173299800-173316600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr1:173300600-173329200	Weak transcription	Primary T cells from cord blood	blood
6	chr1:173301000-173310600	Weak transcription	Stomach Smooth Muscle	stomach
7	chr1:173301400-173321200	Weak transcription	Ovary	ovary
8	chr1:173301600-173311000	Weak transcription	Gastric	stomach
9	chr1:173301800-173310200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr1:173303000-173310000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr1:173303000-173310000	Weak transcription	NHDF-Ad	bronchial
12	chr1:173307600-173309600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr1:173309000-173310000	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr1:173309000-173312400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr1:173309200-173324600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr1:173309400-173309600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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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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