Variant report

Variant	rs1058446
Chromosome Location	chr9:100823135-100823136
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:100746648..100748229-chr9:100822412..100824498,2	MCF-7	breast:
2	chr9:100739257..100741486-chr9:100821509..100823548,2	K562	blood:
3	chr9:100822595..100824589-chr9:100834188..100836915,2	MCF-7	breast:
4	chr9:100817784..100820803-chr9:100821828..100828564,14	MCF-7	breast:
5	chr9:100742340..100750312-chr9:100816953..100823782,17	MCF-7	breast:

Variant related genes	Relation type
ENSG00000236896	Chromatin interaction
ENSG00000095380	Chromatin interaction
ENSG00000136938	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10124238	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10818454	0.94[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs10818468	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10818472	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10984977	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12348197	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12349452	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs12685502	0.81[AMR][1000 genomes]
rs16912590	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28489815	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7855984	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7874696	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9969738	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9969813	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[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	nsv482635	chr9:100775549-100953239	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100819600-100848400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr9:100820000-100823200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr9:100820000-100823200	Weak transcription	Aorta	Aorta
4	chr9:100820000-100823200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr9:100820000-100823200	Weak transcription	Ovary	ovary
6	chr9:100820000-100824200	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr9:100820000-100826800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr9:100820000-100826800	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr9:100820000-100828400	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr9:100820000-100836400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr9:100820000-100836600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr9:100820000-100836600	Weak transcription	Brain Angular Gyrus	brain
13	chr9:100820000-100843000	Weak transcription	Brain Substantia Nigra	brain
14	chr9:100820000-100843200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr9:100820000-100843200	Weak transcription	Brain Germinal Matrix	brain
16	chr9:100820000-100843200	Weak transcription	Fetal Brain Female	brain
17	chr9:100820000-100847200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr9:100820000-100849600	Weak transcription	Fetal Brain Male	brain
19	chr9:100820000-100850000	Weak transcription	Fetal Kidney	kidney
20	chr9:100820200-100823200	Weak transcription	Right Ventricle	heart
21	chr9:100820200-100824000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr9:100820200-100825800	Weak transcription	Primary B cells from cord blood	blood
23	chr9:100820200-100843000	Weak transcription	Pancreatic Islets	Pancreatic Islet
24	chr9:100820600-100824200	Weak transcription	Brain Anterior Caudate	brain
25	chr9:100820600-100825800	Weak transcription	Fetal Lung	lung
26	chr9:100820600-100826200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr9:100820600-100826200	Weak transcription	Placenta Amnion	Placenta Amnion
28	chr9:100820800-100824200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr9:100821000-100823200	Weak transcription	Fetal Intestine Large	intestine
30	chr9:100821000-100826200	Weak transcription	NH-A	brain
31	chr9:100821000-100827000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
32	chr9:100821000-100836400	Weak transcription	Colon Smooth Muscle	Colon
33	chr9:100821200-100823200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr9:100821200-100823200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
35	chr9:100821200-100823200	Weak transcription	Adipose Nuclei	Adipose
36	chr9:100821200-100824200	Weak transcription	Muscle Satellite Cultured Cells	--
37	chr9:100821200-100824200	Weak transcription	HUVEC	blood vessel
38	chr9:100821200-100826200	Weak transcription	Dnd41	blood
39	chr9:100821200-100826200	Weak transcription	HMEC	breast
40	chr9:100821200-100826400	Weak transcription	Brain Hippocampus Middle	brain
41	chr9:100821200-100826600	Weak transcription	Small Intestine	intestine
42	chr9:100821200-100836400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
43	chr9:100821200-100836600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
44	chr9:100821200-100849600	Weak transcription	Right Atrium	heart
45	chr9:100821400-100824400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
46	chr9:100821400-100828200	Weak transcription	NHDF-Ad	bronchial
47	chr9:100821600-100832400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr9:100822000-100823200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr9:100822000-100823200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
50	chr9:100822000-100823400	Genic enhancers	HepG2	liver

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