Variant report

Variant	rs557095
Chromosome Location	chr1:93465636-93465637
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:93459371..93463416-chr1:93464297..93466371,4	K562	blood:

Extended variants
information (count: 8 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs1011663	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs10747454	0.91[AFR][1000 genomes]
rs11164855	0.80[ASN][1000 genomes]
rs475009	1.00[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4847226	0.98[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs534409	0.91[AFR][1000 genomes]
rs579800	0.95[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	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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs557095	FAM69A	cis	Thyroid	GTEx

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:93451800-93466000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr1:93459800-93466000	Weak transcription	Brain Anterior Caudate	brain
3	chr1:93459800-93466000	Weak transcription	GM12878-XiMat	blood
4	chr1:93461800-93466000	Weak transcription	Pancreas	Pancrea
5	chr1:93462200-93465800	Weak transcription	Stomach Mucosa	stomach
6	chr1:93462800-93466000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr1:93463200-93465800	Weak transcription	Brain Cingulate Gyrus	brain
8	chr1:93463800-93466000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr1:93463800-93466000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr1:93463800-93466000	Weak transcription	Placenta	Placenta
11	chr1:93463800-93467600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr1:93464800-93465800	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr1:93464800-93466000	Weak transcription	Fetal Muscle Leg	muscle
14	chr1:93465200-93466000	Weak transcription	Fetal Intestine Large	intestine
15	chr1:93465200-93468000	Enhancers	Fetal Intestine Small	intestine
16	chr1:93465400-93465800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr1:93465400-93466000	Enhancers	HUES64 Cell Line	embryonic stem cell
18	chr1:93465600-93466000	Enhancers	iPS-20b Cell Line	embryonic stem cell
19	chr1:93465600-93466200	Enhancers	iPS-18 Cell Line	embryonic stem cell
20	chr1:93465600-93467200	Enhancers	iPS-15b Cell Line	embryonic stem cell

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