Variant report

Variant	rs10764515
Chromosome Location	chr10:25277917-25277918
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:25277210..25278984-chr10:25279762..25281866,2	K562	blood:
2	chr10:25011866..25014535-chr10:25277806..25280414,2	K562	blood:
3	chr10:25241921..25243506-chr10:25276442..25278938,2	K562	blood:

Variant related genes	Relation type
ENSG00000273107	Chromatin interaction
ENSG00000107863	Chromatin interaction

Extended variants
information (count: 87 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:85)

rs_ID	r²[population]
rs1000875	0.95[CHB][hapmap];0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs10508685	0.95[CHB][hapmap];0.91[JPT][hapmap];0.84[ASN][1000 genomes]
rs10508686	0.95[CHB][hapmap];0.95[CHD][hapmap];0.82[GIH][hapmap];0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs10764516	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10764517	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10764518	0.95[CHB][hapmap];0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs10764519	0.81[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];0.83[MEX][hapmap];0.89[MKK][hapmap]
rs10828740	0.85[ASN][1000 genomes]
rs10828741	0.95[CHB][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs10828744	0.85[ASN][1000 genomes]
rs10828745	0.95[CHB][hapmap];0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs10828751	0.85[CEU][hapmap];0.87[YRI][hapmap]
rs11014347	0.85[ASN][1000 genomes]
rs11014348	0.85[ASN][1000 genomes]
rs11014349	0.85[ASN][1000 genomes]
rs11014350	0.87[ASN][1000 genomes]
rs11014351	0.83[ASN][1000 genomes]
rs11014357	0.89[ASW][hapmap];0.81[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];0.88[LWK][hapmap];0.87[MEX][hapmap];0.98[MKK][hapmap];0.88[YRI][hapmap];0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs11014360	0.85[ASN][1000 genomes]
rs11014367	0.87[YRI][hapmap]
rs1124017	0.85[ASN][1000 genomes]
rs11593926	0.85[ASN][1000 genomes]
rs11598879	0.85[ASN][1000 genomes]
rs12249889	0.95[CHB][hapmap];0.95[CHD][hapmap];0.86[GIH][hapmap];0.85[ASN][1000 genomes]
rs12256642	0.95[CHB][hapmap];0.98[CHD][hapmap];0.86[GIH][hapmap];0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs12356765	0.86[ASN][1000 genomes]
rs12761282	0.85[ASN][1000 genomes]
rs12776058	0.85[ASN][1000 genomes]
rs12784769	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1352982	0.83[AMR][1000 genomes]
rs1352984	0.83[ASN][1000 genomes]
rs1352985	0.85[ASN][1000 genomes]
rs1492608	0.95[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs1546097	0.95[CHB][hapmap];0.98[CHD][hapmap];0.84[GIH][hapmap];0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs166670	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs16925207	0.80[ASN][1000 genomes]
rs185669	0.80[CEU][hapmap]
rs2007364	0.86[AMR][1000 genomes]
rs2031600	0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2087782	0.85[ASN][1000 genomes]
rs2131276	0.95[CHB][hapmap];0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs2131277	0.85[ASN][1000 genomes]
rs2279547	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2291583	0.91[CHB][hapmap];0.98[CHD][hapmap];0.86[GIH][hapmap];0.91[JPT][hapmap];0.83[ASN][1000 genomes]
rs2291584	0.85[ASN][1000 genomes]
rs2291585	0.85[ASN][1000 genomes]
rs2291586	0.85[ASN][1000 genomes]
rs2307047	0.85[CEU][hapmap];0.87[CHB][hapmap];0.93[CHD][hapmap];0.86[GIH][hapmap];0.87[JPT][hapmap];0.88[MEX][hapmap];0.86[ASN][1000 genomes]
rs2367506	0.85[ASN][1000 genomes]
rs274288	0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs274289	0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs274290	0.84[ASN][1000 genomes]
rs274293	0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs274294	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs274301	0.92[CEU][hapmap];1.00[CHB][hapmap];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs274304	0.81[CEU][hapmap]
rs274305	0.84[CEU][hapmap];0.86[CHB][hapmap];0.82[GIH][hapmap]
rs274311	0.84[CEU][hapmap];0.86[CHB][hapmap];0.93[CHD][hapmap];0.82[GIH][hapmap]
rs274313	0.84[CEU][hapmap];0.86[CHB][hapmap]
rs274316	0.84[CEU][hapmap]
rs2818289	0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4345864	0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs4556443	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4747509	0.85[ASN][1000 genomes]
rs4747510	0.85[ASN][1000 genomes]
rs4747511	0.85[ASN][1000 genomes]
rs4748993	0.80[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap]
rs4748996	0.95[CHB][hapmap];0.98[CHD][hapmap];0.86[GIH][hapmap];0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs4748997	0.85[ASN][1000 genomes]
rs4748998	0.85[ASN][1000 genomes]
rs4748999	0.85[ASN][1000 genomes]
rs4749000	0.80[CHD][hapmap];0.82[GIH][hapmap]
rs56192563	0.87[ASN][1000 genomes]
rs6482467	0.95[CHB][hapmap];0.82[JPT][hapmap];0.84[ASN][1000 genomes]
rs6482468	0.88[CEU][hapmap];0.83[CHB][hapmap];0.83[YRI][hapmap];0.84[AMR][1000 genomes]
rs7082131	0.83[AFR][1000 genomes];0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7086282	0.89[ASW][hapmap];0.81[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];0.94[LWK][hapmap];0.87[MEX][hapmap];0.98[MKK][hapmap];0.91[YRI][hapmap];0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs7095364	0.85[ASN][1000 genomes]
rs7393543	0.81[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];0.90[MKK][hapmap];0.86[ASN][1000 genomes]
rs7913853	0.95[CHB][hapmap];0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs902903	0.88[CEU][hapmap];0.82[CHB][hapmap];0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs902904	0.95[CHB][hapmap];0.98[CHD][hapmap];0.86[GIH][hapmap];0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs902905	0.95[CHB][hapmap];0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs950609	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs987274	0.81[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[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	esv3452797	chr10:25276796-25278244	Weak transcription Enhancers Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	esv3452808	chr10:25276796-25278244	Weak transcription Enhancers Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs10764515	ANKRD9	trans	cerebellum	SCAN
rs10764515	THNSL1	cis	parietal	SCAN
rs10764515	THNSL1	cis	cerebellum	SCAN
rs10764515	PIP4K2A	cis	parietal	SCAN

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:25264400-25281800	Weak transcription	Fetal Intestine Small	intestine
2	chr10:25264600-25292200	Weak transcription	Ovary	ovary
3	chr10:25272400-25281000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr10:25274200-25278200	Weak transcription	A549	lung
5	chr10:25275400-25278400	Enhancers	Brain Hippocampus Middle	brain
6	chr10:25276600-25280400	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr10:25277000-25278200	Weak transcription	Hela-S3	cervix
8	chr10:25277400-25278400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr10:25277400-25278600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr10:25277600-25278400	Enhancers	Primary hematopoietic stem cells short term culture	blood
11	chr10:25277600-25278400	Enhancers	Brain Anterior Caudate	brain
12	chr10:25277600-25278400	Enhancers	Brain Cingulate Gyrus	brain
13	chr10:25277600-25278400	Enhancers	Brain Substantia Nigra	brain
14	chr10:25277600-25278600	Enhancers	Fetal Brain Male	brain
15	chr10:25277800-25278000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr10:25277800-25278000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr10:25277800-25278000	Enhancers	Fetal Muscle Trunk	muscle
18	chr10:25277800-25278200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr10:25277800-25278400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr10:25277800-25278400	Enhancers	Brain Angular Gyrus	brain
21	chr10:25277800-25278400	Enhancers	Brain Inferior Temporal Lobe	brain
22	chr10:25277800-25278400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
23	chr10:25277800-25278400	Enhancers	Fetal Thymus	thymus
24	chr10:25277800-25278400	Enhancers	Gastric	stomach
25	chr10:25277800-25278400	Enhancers	Left Ventricle	heart
26	chr10:25277800-25278400	Enhancers	Pancreas	Pancrea
27	chr10:25277800-25278400	Enhancers	Right Atrium	heart
28	chr10:25277800-25278400	Enhancers	Spleen	Spleen
29	chr10:25277800-25278400	Enhancers	HUVEC	blood vessel
30	chr10:25277800-25278400	Flanking Active TSS	K562	blood
31	chr10:25277800-25278600	Enhancers	Fetal Brain Female	brain
32	chr10:25277800-25279200	Enhancers	Adipose Nuclei	Adipose

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links