Variant report

Variant	rs2668798
Chromosome Location	chr9:100474071-100474072
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:100472331..100474659-chr9:100661495..100663570,2	MCF-7	breast:
2	chr9:100470983..100474278-chr9:100563427..100567562,3	MCF-7	breast:
3	chr9:100469221..100472408-chr9:100472563..100475555,3	K562	blood:
4	chr9:100457305..100459777-chr9:100472786..100474534,2	MCF-7	breast:
5	chr9:100465773..100467417-chr9:100473375..100476124,2	MCF-7	breast:
6	chr9:100466290..100468242-chr9:100471348..100474178,4	K562	blood:
7	chr9:100473102..100474630-chr9:100476302..100477871,2	K562	blood:
8	chr9:100471241..100474154-chr9:100481493..100483041,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000136936	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10983030	0.84[EUR][1000 genomes]
rs10983447	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12378130	0.84[ASN][1000 genomes]
rs12379552	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1800975	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2026132	0.84[EUR][1000 genomes]
rs2036959	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2668792	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2668793	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2773347	0.81[EUR][1000 genomes]
rs2773351	0.85[EUR][1000 genomes]
rs2805767	0.84[EUR][1000 genomes]
rs2805775	0.84[EUR][1000 genomes]
rs2805777	0.84[EUR][1000 genomes]
rs2805779	0.83[EUR][1000 genomes]
rs2805824	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2805825	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2805826	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2805828	0.80[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2805829	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2805832	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2805837	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2805839	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2805840	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2808668	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2808673	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2808675	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2808677	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2808683	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2808685	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2808686	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2808687	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2808689	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2808691	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2808692	0.95[EUR][1000 genomes]
rs2808694	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2808701	0.92[EUR][1000 genomes]
rs2808703	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6478325	0.83[EUR][1000 genomes]
rs7465737	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]

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	nsv893610	chr9:100324086-100496160	Active TSS Strong transcription Enhancers ZNF genes & repeats Weak transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	nsv1043753	chr9:100458109-100599265	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100467200-100476400	Weak transcription	Fetal Intestine Large	intestine
2	chr9:100468000-100476600	Weak transcription	GM12878-XiMat	blood
3	chr9:100471200-100476400	Weak transcription	Fetal Intestine Small	intestine
4	chr9:100472600-100474200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
5	chr9:100472800-100476400	Weak transcription	HepG2	liver
6	chr9:100473200-100474400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr9:100473600-100475600	Weak transcription	A549	lung
8	chr9:100473600-100475600	Weak transcription	Hela-S3	cervix
9	chr9:100473600-100475800	Weak transcription	HMEC	breast
10	chr9:100473600-100475800	Weak transcription	NHEK	skin
11	chr9:100473600-100476000	Weak transcription	Muscle Satellite Cultured Cells	--
12	chr9:100473600-100476000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr9:100473600-100476400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr9:100473600-100476400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr9:100473600-100476400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr9:100473600-100476600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr9:100473600-100476600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr9:100473800-100474200	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr9:100473800-100474400	Bivalent Enhancer	HUES64 Cell Line	embryonic stem cell
20	chr9:100473800-100475800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr9:100473800-100476000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
22	chr9:100473800-100476000	Weak transcription	HSMM	muscle
23	chr9:100473800-100476000	Weak transcription	HSMMtube	muscle
24	chr9:100473800-100476200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
25	chr9:100473800-100476400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
26	chr9:100473800-100476400	Weak transcription	NHLF	lung
27	chr9:100473800-100476600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr9:100474000-100474200	Enhancers	ES-I3 Cell Line	embryonic stem cell
29	chr9:100474000-100474400	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
30	chr9:100474000-100474400	Enhancers	HUES6 Cell Line	embryonic stem cell
31	chr9:100474000-100474400	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
32	chr9:100474000-100474400	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
33	chr9:100474000-100474400	Enhancers	iPS-20b Cell Line	embryonic stem cell
34	chr9:100474000-100476000	Weak transcription	Placenta Amnion	Placenta Amnion
35	chr9:100474000-100476200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
36	chr9:100474000-100476200	Weak transcription	Primary T helper cells fromperipheralblood	blood
37	chr9:100474000-100476400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
38	chr9:100474000-100476400	Weak transcription	Primary T helper cells PMA-I stimulated	--
39	chr9:100474000-100476600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links