Variant report

Variant	rs10493865
Chromosome Location	chr1:93481640-93481641
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:93458381..93461372-chr1:93479810..93482559,2	MCF-7	breast:
2	chr1:93331676..93334164-chr1:93480401..93483353,2	K562	blood:

Extended variants
information (count: 10 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs17131682	1.00[ASW][hapmap];0.80[CEU][hapmap];1.00[CHD][hapmap];1.00[LWK][hapmap];0.91[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17131685	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17381426	1.00[ASW][hapmap];0.80[CEU][hapmap];1.00[CHD][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs34073220	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71652517	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7533572	0.80[AMR][1000 genomes]
rs7533577	0.80[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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
2	nsv830614	chr1:93465978-93678700	Strong transcription Weak transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv870775	chr1:93481640-93543119	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10493865	FAM69A	cis	Artery Tibial	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:93474200-93490600	Weak transcription	K562	blood
2	chr1:93478200-93482600	Enhancers	Fetal Muscle Leg	muscle
3	chr1:93478800-93482400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr1:93478800-93482400	Enhancers	HSMMtube	muscle
5	chr1:93479000-93482200	Enhancers	HSMM	muscle
6	chr1:93479600-93482200	Enhancers	HUVEC	blood vessel
7	chr1:93479800-93481800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr1:93480000-93481800	Weak transcription	HepG2	liver
9	chr1:93480400-93491000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
10	chr1:93480800-93481800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr1:93480800-93481800	Weak transcription	Psoas Muscle	Psoas
12	chr1:93480800-93482000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr1:93480800-93482000	Enhancers	Small Intestine	intestine
14	chr1:93480800-93482400	Enhancers	NHDF-Ad	bronchial
15	chr1:93481000-93482000	Enhancers	Fetal Heart	heart
16	chr1:93481000-93482200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr1:93481000-93482400	Enhancers	Hela-S3	cervix
18	chr1:93481200-93482000	Enhancers	NHEK	skin
19	chr1:93481200-93482400	Enhancers	Adipose Nuclei	Adipose
20	chr1:93481400-93481800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr1:93481400-93481800	Flanking Active TSS	Osteobl	bone
22	chr1:93481400-93482000	Flanking Active TSS	Muscle Satellite Cultured Cells	--
23	chr1:93481400-93482000	Flanking Active TSS	A549	lung
24	chr1:93481400-93482200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr1:93481400-93482200	Enhancers	HUES64 Cell Line	embryonic stem cell
26	chr1:93481400-93482200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr1:93481400-93482200	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr1:93481400-93482200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr1:93481400-93482200	Enhancers	Colon Smooth Muscle	Colon
30	chr1:93481400-93482200	Enhancers	Duodenum Smooth Muscle	Duodenum
31	chr1:93481400-93482200	Enhancers	Rectal Smooth Muscle	rectum
32	chr1:93481400-93482200	Enhancers	NH-A	brain
33	chr1:93481400-93482400	Enhancers	ES-I3 Cell Line	embryonic stem cell
34	chr1:93481400-93482400	Enhancers	HUES48 Cell Line	embryonic stem cell
35	chr1:93481400-93482400	Enhancers	HUES6 Cell Line	embryonic stem cell
36	chr1:93481400-93482400	Enhancers	iPS-18 Cell Line	embryonic stem cell
37	chr1:93481400-93482400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr1:93481400-93482400	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
39	chr1:93481600-93481800	Flanking Active TSS	NHLF	lung
40	chr1:93481600-93482000	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
41	chr1:93481600-93482200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
42	chr1:93481600-93482400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr1:93481600-93482400	Enhancers	Liver	Liver
44	chr1:93481600-93482600	Enhancers	iPS-15b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links