Variant report

Variant	rs2584806
Chromosome Location	chr9:97529278-97529279
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:97529221..97532775-chr9:97533309..97537011,4	K562	blood:
2	chr9:97488223..97490513-chr9:97527802..97530003,2	MCF-7	breast:
3	chr9:97529158..97531102-chr9:97866148..97868747,2	MCF-7	breast:
4	chr9:97528259..97530073-chr9:97535498..97538318,2	MCF-7	breast:
5	chr9:97524321..97526027-chr9:97528891..97531029,2	K562	blood:

Variant related genes	Relation type
ENSG00000148120	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs1016013	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10821401	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10821415	0.92[CEU][hapmap]
rs10993365	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10993370	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs10993372	0.96[CEU][hapmap];0.94[CHB][hapmap];0.91[YRI][hapmap];0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10993377	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10993398	0.92[CEU][hapmap]
rs11787821	0.82[EUR][1000 genomes]
rs12235316	0.92[CEU][hapmap];0.84[YRI][hapmap]
rs1751434	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs183066	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.91[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28540393	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35487382	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs356131	1.00[ASW][hapmap];0.96[CEU][hapmap];0.82[JPT][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs356141	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs368138	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs391784	0.96[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.91[YRI][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs406654	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs414253	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4385527	0.89[ASW][hapmap];0.96[CEU][hapmap];1.00[GIH][hapmap];0.83[MKK][hapmap];0.91[TSI][hapmap];0.82[YRI][hapmap];0.87[EUR][1000 genomes]
rs446540	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4744369	1.00[CEU][hapmap];0.93[TSI][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4744378	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];0.87[LWK][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4744403	0.96[CEU][hapmap];0.82[YRI][hapmap];0.82[EUR][1000 genomes]
rs4744411	0.92[CEU][hapmap]
rs7019720	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7026071	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7851726	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7853195	0.92[CEU][hapmap];0.86[TSI][hapmap]
rs7865239	0.92[CEU][hapmap]
rs7866848	1.00[CEU][hapmap];0.82[JPT][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.94[EUR][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	nsv893596	chr9:97321172-97598966	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
2	nsv1041922	chr9:97444976-97536753	Flanking Active TSS Strong transcription Weak transcription Active TSS ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97506200-97533400	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr9:97509200-97536000	Weak transcription	Pancreas	Pancrea
3	chr9:97512600-97530400	Weak transcription	Primary T helper cells PMA-I stimulated	--
4	chr9:97512600-97540800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
5	chr9:97512600-97544600	Weak transcription	Psoas Muscle	Psoas
6	chr9:97519800-97531200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr9:97519800-97544600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr9:97520400-97531800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
9	chr9:97520600-97529600	Weak transcription	NH-A	brain
10	chr9:97520600-97530600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr9:97520800-97531200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr9:97521800-97541200	Weak transcription	Right Ventricle	heart
13	chr9:97522400-97540400	Weak transcription	Fetal Heart	heart
14	chr9:97522800-97532600	Weak transcription	K562	blood
15	chr9:97522800-97534600	Weak transcription	Fetal Brain Male	brain
16	chr9:97522800-97534600	Weak transcription	NHLF	lung
17	chr9:97523000-97530200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr9:97523000-97534600	Weak transcription	Ovary	ovary
19	chr9:97523200-97529800	Weak transcription	GM12878-XiMat	blood
20	chr9:97523200-97532600	Weak transcription	Brain Hippocampus Middle	brain
21	chr9:97523200-97535000	Weak transcription	Colon Smooth Muscle	Colon
22	chr9:97523400-97529600	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr9:97523400-97529600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr9:97523400-97529600	Weak transcription	Primary B cells from cord blood	blood
25	chr9:97523400-97529800	Weak transcription	Cortex derived primary cultured neurospheres	brain
26	chr9:97523400-97530000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr9:97523400-97530400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr9:97523400-97530800	Weak transcription	HUES48 Cell Line	embryonic stem cell
29	chr9:97523400-97530800	Weak transcription	Brain Cingulate Gyrus	brain
30	chr9:97523400-97531200	Weak transcription	HUES6 Cell Line	embryonic stem cell
31	chr9:97523400-97532000	Weak transcription	Adipose Nuclei	Adipose
32	chr9:97523400-97532000	Weak transcription	Duodenum Mucosa	Duodenum
33	chr9:97523400-97532000	Weak transcription	Rectal Mucosa Donor 31	rectum
34	chr9:97523400-97533000	Weak transcription	Brain Inferior Temporal Lobe	brain
35	chr9:97523400-97533400	Weak transcription	Brain Substantia Nigra	brain
36	chr9:97523400-97533600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
37	chr9:97523400-97534400	Weak transcription	Osteobl	bone
38	chr9:97523400-97534600	Weak transcription	Right Atrium	heart
39	chr9:97523400-97535600	Weak transcription	Aorta	Aorta
40	chr9:97523400-97535800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
41	chr9:97523400-97541400	Weak transcription	NHEK	skin
42	chr9:97523400-97544400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr9:97523400-97544400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr9:97523400-97545200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
45	chr9:97523400-97545200	Weak transcription	Liver	Liver
46	chr9:97523400-97545200	Weak transcription	Lung	lung
47	chr9:97523400-97545400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
48	chr9:97523400-97552600	Weak transcription	Dnd41	blood
49	chr9:97523400-97554000	Weak transcription	Primary T cells from cord blood	blood
50	chr9:97523400-97557800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links