Variant report

Variant	rs10821027
Chromosome Location	chr9:95607083-95607084
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	chr9:95601889..95603930-chr9:95606539..95609176,2	K562	blood:

Extended variants
information (count: 47 )
Associated
traits (count: 3 )

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

rs_ID	r²[population]
rs10115872	0.81[EUR][1000 genomes]
rs10123843	0.81[CEU][hapmap];0.82[EUR][1000 genomes]
rs10123870	0.81[EUR][1000 genomes]
rs1022834	0.87[ASN][1000 genomes]
rs1047868	0.98[ASN][1000 genomes]
rs10739933	0.81[CEU][hapmap];0.82[EUR][1000 genomes]
rs10739934	0.80[CEU][hapmap];0.82[EUR][1000 genomes]
rs10761173	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs10821020	0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs10821023	0.98[ASN][1000 genomes]
rs10821030	0.81[CEU][hapmap];0.81[EUR][1000 genomes]
rs10821031	0.82[EUR][1000 genomes]
rs10821035	0.81[EUR][1000 genomes]
rs10992484	0.98[ASN][1000 genomes]
rs10992489	0.81[CEU][hapmap];0.81[TSI][hapmap]
rs12337654	0.81[CEU][hapmap]
rs12338961	0.82[EUR][1000 genomes]
rs13295605	0.91[ASN][1000 genomes]
rs1810685	0.98[ASN][1000 genomes]
rs1810686	0.96[ASN][1000 genomes]
rs1810687	0.98[ASN][1000 genomes]
rs1972214	0.98[ASN][1000 genomes]
rs1998483	0.98[ASN][1000 genomes]
rs2009444	0.98[ASN][1000 genomes]
rs2146718	0.86[EUR][1000 genomes]
rs4625094	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4744148	0.98[ASN][1000 genomes]
rs4744150	0.81[CEU][hapmap];0.82[EUR][1000 genomes]
rs6479434	0.81[CEU][hapmap];0.82[EUR][1000 genomes]
rs7032277	0.81[EUR][1000 genomes]
rs7039812	0.81[CEU][hapmap];0.81[EUR][1000 genomes]
rs7040645	0.81[CEU][hapmap];0.82[EUR][1000 genomes]
rs7049211	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs7847713	0.82[EUR][1000 genomes]
rs7850036	0.98[ASN][1000 genomes]
rs7859380	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7865255	0.98[ASN][1000 genomes]
rs7866339	0.96[ASN][1000 genomes]
rs7868123	0.98[ASN][1000 genomes]
rs7869498	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs7873021	0.82[EUR][1000 genomes]
rs7873259	0.94[ASN][1000 genomes]
rs7873819	0.98[ASN][1000 genomes]
rs7873954	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9775485	1.00[CEU][hapmap];0.90[CHB][hapmap];0.90[CHD][hapmap];0.98[GIH][hapmap];0.93[JPT][hapmap];0.97[LWK][hapmap];0.92[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[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	nsv831654	chr9:95542920-95720961	ZNF genes & repeats Flanking Active TSS Active TSS Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	nsv893574	chr9:95580376-95688099	Active TSS Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10821027	ZNF484	cis	parietal	SCAN
rs10821027	FANCC	cis	cerebellum	SCAN
rs10821027	ZNF484	cis	cerebellum	SCAN

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95598000-95616800	ZNF genes & repeats	Liver	Liver
2	chr9:95599800-95608400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr9:95600000-95608400	Weak transcription	Placenta	Placenta
4	chr9:95600000-95610000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr9:95603000-95607800	Weak transcription	NH-A	brain
6	chr9:95603200-95608000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr9:95603400-95616200	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr9:95603600-95609000	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr9:95604400-95608400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr9:95604600-95607600	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr9:95605000-95608400	Weak transcription	Rectal Smooth Muscle	rectum
12	chr9:95605000-95611200	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr9:95605000-95624200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr9:95605400-95608400	Weak transcription	Brain Cingulate Gyrus	brain
15	chr9:95605400-95611000	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
16	chr9:95605600-95608200	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr9:95605600-95613200	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
18	chr9:95605800-95608400	Weak transcription	Aorta	Aorta
19	chr9:95605800-95610800	ZNF genes & repeats	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr9:95605800-95613400	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr9:95605800-95615600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr9:95606000-95612400	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
23	chr9:95606000-95613400	ZNF genes & repeats	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr9:95606200-95607400	Strong transcription	HSMM	muscle
25	chr9:95606200-95607600	Weak transcription	A549	lung
26	chr9:95606200-95614000	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
27	chr9:95606400-95608800	Weak transcription	Fetal Thymus	thymus
28	chr9:95606400-95611200	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
29	chr9:95606600-95613600	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
30	chr9:95606800-95607800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr9:95606800-95607800	Weak transcription	Fetal Muscle Trunk	muscle
32	chr9:95606800-95610200	Weak transcription	Fetal Stomach	stomach
33	chr9:95606800-95619600	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links