Variant report

Variant	rs17109954
Chromosome Location	chr1:93912195-93912196
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ZEB1	chr1:93912114-93915243	HepG2	liver:	n/a	chr1:93914930-93914942 chr1:93913497-93913508

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:93910284..93912598-chr1:93914340..93918021,4	K562	blood:
2	chr1:93909973..93912859-chr1:94016943..94019363,2	K562	blood:

Variant related genes	Relation type
FNBP1L	TF binding region

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10157785	1.00[EUR][1000 genomes]
rs11799859	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11802421	1.00[EUR][1000 genomes]
rs11805046	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11808266	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17110016	1.00[EUR][1000 genomes]
rs17131715	1.00[EUR][1000 genomes]
rs17131717	1.00[EUR][1000 genomes]
rs35555794	1.00[EUR][1000 genomes]
rs55670441	1.00[EUR][1000 genomes]
rs55742446	1.00[EUR][1000 genomes]
rs55959166	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57291093	1.00[EUR][1000 genomes]
rs57353954	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58351576	1.00[EUR][1000 genomes]
rs58505360	1.00[EUR][1000 genomes]
rs59045869	1.00[EUR][1000 genomes]
rs59250599	1.00[EUR][1000 genomes]
rs60032869	1.00[EUR][1000 genomes]
rs60046384	1.00[EUR][1000 genomes]
rs60517691	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61215181	1.00[EUR][1000 genomes]
rs61671588	1.00[EUR][1000 genomes]
rs6541360	1.00[EUR][1000 genomes]
rs6541378	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6664053	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6678465	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6682265	1.00[EUR][1000 genomes]
rs6687167	1.00[EUR][1000 genomes]
rs6703963	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72957300	1.00[EUR][1000 genomes]
rs72961310	1.00[EUR][1000 genomes]
rs74101464	1.00[EUR][1000 genomes]
rs74101603	1.00[EUR][1000 genomes]
rs74101663	1.00[EUR][1000 genomes]
rs74101667	1.00[EUR][1000 genomes]
rs74101669	1.00[EUR][1000 genomes]
rs74101670	1.00[EUR][1000 genomes]
rs74104033	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7518171	1.00[EUR][1000 genomes]
rs7525388	1.00[EUR][1000 genomes]
rs7530923	1.00[EUR][1000 genomes]
rs7545358	1.00[EUR][1000 genomes]
rs754899	1.00[EUR][1000 genomes]
rs9662414	1.00[EUR][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	nsv871640	chr1:93807122-93953469	Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:93901000-93912800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr1:93901200-93912200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr1:93901800-93912800	Weak transcription	NH-A	brain
4	chr1:93904200-93912200	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr1:93908200-93912400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr1:93908200-93912400	Weak transcription	Adipose Nuclei	Adipose
7	chr1:93908200-93912400	Weak transcription	Pancreas	Pancrea
8	chr1:93908200-93912400	Weak transcription	HMEC	breast
9	chr1:93908400-93912200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr1:93908400-93912400	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr1:93908600-93912200	Weak transcription	Duodenum Mucosa	Duodenum
12	chr1:93908600-93912200	Weak transcription	Fetal Intestine Large	intestine
13	chr1:93908600-93912400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr1:93908600-93912400	Weak transcription	Fetal Intestine Small	intestine
15	chr1:93908600-93912600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr1:93908600-93912800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr1:93909400-93912200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr1:93909400-93912200	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr1:93909400-93912200	Weak transcription	NHEK	skin
20	chr1:93909400-93912400	Weak transcription	Stomach Mucosa	stomach
21	chr1:93909400-93912400	Weak transcription	Hela-S3	cervix
22	chr1:93909600-93912400	Weak transcription	A549	lung
23	chr1:93909600-93912600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr1:93911400-93912400	Weak transcription	Placenta Amnion	Placenta Amnion
25	chr1:93911800-93912200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr1:93912000-93912200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr1:93912000-93912200	Enhancers	Rectal Mucosa Donor 31	rectum
28	chr1:93912000-93912200	Enhancers	K562	blood
29	chr1:93912000-93912400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr1:93912000-93912400	Enhancers	Liver	Liver
31	chr1:93912000-93912400	Enhancers	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links