Variant report

Variant	rs1888161
Chromosome Location	chr9:116699278-116699279
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	chr9:116690832..116694105-chr9:116696668..116699935,3	K562	blood:

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10119978	1.00[CEU][hapmap];0.85[YRI][hapmap];0.95[EUR][1000 genomes]
rs10448275	1.00[CEU][hapmap];0.86[CHB][hapmap];0.90[JPT][hapmap];0.87[YRI][hapmap]
rs10448276	0.86[CEU][hapmap]
rs10513222	0.82[CHB][hapmap]
rs10513223	0.82[CEU][hapmap]
rs10739396	0.85[CEU][hapmap]
rs10759664	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs10759665	1.00[CEU][hapmap];0.90[YRI][hapmap];0.97[EUR][1000 genomes]
rs10759666	1.00[CEU][hapmap];0.90[YRI][hapmap];0.95[EUR][1000 genomes]
rs10817532	0.91[CHB][hapmap]
rs10817536	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10817537	0.88[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs10817538	0.82[EUR][1000 genomes]
rs10817539	1.00[CEU][hapmap];0.86[CHB][hapmap];0.95[JPT][hapmap];0.90[YRI][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10817541	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs10982007	0.95[CHB][hapmap];0.82[ASN][1000 genomes]
rs10982008	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10982015	0.95[EUR][1000 genomes]
rs10982017	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs12343628	0.80[ASN][1000 genomes]
rs13290326	0.83[ASN][1000 genomes]
rs1330166	0.85[CEU][hapmap]
rs1330169	1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs1536962	1.00[CEU][hapmap];0.90[YRI][hapmap];0.95[EUR][1000 genomes]
rs1536965	1.00[CEU][hapmap];0.90[YRI][hapmap];0.95[EUR][1000 genomes]
rs1536966	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs1544102	0.81[CEU][hapmap]
rs2026143	0.96[CEU][hapmap];0.83[EUR][1000 genomes]
rs2183364	1.00[CHB][hapmap]
rs2418259	1.00[CHB][hapmap]
rs2418260	1.00[CEU][hapmap];0.83[YRI][hapmap];0.81[EUR][1000 genomes]
rs2418261	0.95[EUR][1000 genomes]
rs2900568	0.80[ASN][1000 genomes]
rs2900569	1.00[CHB][hapmap];0.80[ASN][1000 genomes]
rs2900570	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs2900571	0.82[CEU][hapmap]
rs4979307	0.96[CEU][hapmap];0.83[EUR][1000 genomes]
rs7029830	0.95[CHB][hapmap]
rs7032101	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs7046776	0.96[CEU][hapmap];0.86[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7047895	0.91[CHB][hapmap]
rs7853127	0.91[CHB][hapmap]
rs7867998	1.00[CEU][hapmap];0.86[CHB][hapmap];0.95[JPT][hapmap];0.90[YRI][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7869027	0.92[CEU][hapmap];0.81[EUR][1000 genomes]
rs814680	0.96[CEU][hapmap];0.85[EUR][1000 genomes]
rs814696	0.85[CEU][hapmap]
rs871806	1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs871808	1.00[CEU][hapmap];0.91[CHB][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs882980	1.00[CHB][hapmap]
rs944180	1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs9942970	0.80[ASN][1000 genomes]
rs9942975	1.00[CHB][hapmap];0.80[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	nsv430093	chr9:116330446-117325446	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	165 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:116691400-116704200	Weak transcription	HSMM	muscle
2	chr9:116691800-116709000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr9:116692000-116704200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr9:116692000-116719400	Weak transcription	HMEC	breast
5	chr9:116692400-116716800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr9:116692400-116717200	Weak transcription	A549	lung
7	chr9:116693200-116705400	Weak transcription	Psoas Muscle	Psoas
8	chr9:116693600-116703400	Weak transcription	NH-A	brain
9	chr9:116693600-116704200	Weak transcription	Fetal Lung	lung
10	chr9:116693800-116714200	Weak transcription	Fetal Kidney	kidney
11	chr9:116694200-116704200	Weak transcription	Fetal Stomach	stomach
12	chr9:116695600-116711600	Weak transcription	Liver	Liver
13	chr9:116695800-116699400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr9:116695800-116704200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr9:116695800-116705400	Weak transcription	Lung	lung
16	chr9:116695800-116708800	Weak transcription	Pancreas	Pancrea
17	chr9:116695800-116716000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr9:116696000-116703800	Weak transcription	NHLF	lung
19	chr9:116696000-116714800	Weak transcription	Muscle Satellite Cultured Cells	--
20	chr9:116696200-116699400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr9:116696200-116699400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
22	chr9:116696200-116701200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr9:116696200-116719800	Weak transcription	Gastric	stomach
24	chr9:116697600-116705400	Weak transcription	Spleen	Spleen
25	chr9:116697600-116715000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr9:116698200-116703000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr9:116698200-116703000	Weak transcription	Fetal Muscle Trunk	muscle
28	chr9:116698200-116708200	Weak transcription	Fetal Intestine Small	intestine
29	chr9:116698400-116703800	Weak transcription	H1 Cell Line	embryonic stem cell
30	chr9:116698400-116708800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
31	chr9:116698600-116700000	Enhancers	HUVEC	blood vessel
32	chr9:116698600-116704000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
33	chr9:116698600-116707200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr9:116699000-116700600	Weak transcription	Ovary	ovary
35	chr9:116699200-116699800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links