Variant report

Variant	rs2052977
Chromosome Location	chr9:103993499-103993500
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10819914	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs10819917	0.85[CEU][hapmap];0.82[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10989435	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10989436	0.85[ASN][1000 genomes]
rs10989437	0.85[ASN][1000 genomes]
rs10989438	0.89[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10989439	0.89[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10989441	0.89[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10989443	0.93[ASN][1000 genomes]
rs10989444	0.85[CEU][hapmap];0.90[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10989445	0.93[ASN][1000 genomes]
rs10989447	0.90[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes]
rs10989449	0.98[ASN][1000 genomes]
rs10989451	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs10989452	0.85[CEU][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10989453	0.98[AFR][1000 genomes]
rs10989457	0.82[CEU][hapmap];0.90[CHB][hapmap];0.85[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10989458	0.85[CEU][hapmap];0.89[CHB][hapmap];0.85[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10989459	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10989460	0.89[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs12237444	0.85[CEU][hapmap];0.90[CHB][hapmap];0.85[JPT][hapmap]
rs12237723	0.85[ASN][1000 genomes]
rs12237965	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1341764	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs1341765	0.85[CEU][hapmap];0.90[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1341766	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1341767	0.90[CHB][hapmap]
rs16920106	0.82[JPT][hapmap]
rs1857028	0.86[AFR][1000 genomes]
rs2771073	0.85[JPT][hapmap]
rs2987730	0.82[JPT][hapmap]
rs411448	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs4147116	0.89[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs4742809	0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs57966478	0.85[ASN][1000 genomes]
rs643697	1.00[JPT][hapmap];0.83[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	nsv831671	chr9:103858107-104020816	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:103987400-103995200	Weak transcription	Fetal Brain Female	brain
2	chr9:103991200-103994400	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr9:103991400-103994800	Enhancers	Brain Cingulate Gyrus	brain
4	chr9:103992000-103994200	Enhancers	Brain Substantia Nigra	brain
5	chr9:103992000-103994600	Enhancers	Brain Anterior Caudate	brain
6	chr9:103992000-103994800	Enhancers	HUES64 Cell Line	embryonic stem cell
7	chr9:103992000-103995400	Enhancers	Liver	Liver
8	chr9:103992400-103993600	Enhancers	Brain Inferior Temporal Lobe	brain
9	chr9:103992400-103994600	Enhancers	HUES48 Cell Line	embryonic stem cell
10	chr9:103992400-103997400	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr9:103992600-103993800	Enhancers	H1 Cell Line	embryonic stem cell
12	chr9:103992800-103994200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
13	chr9:103992800-103994600	Enhancers	iPS-15b Cell Line	embryonic stem cell
14	chr9:103992800-103994800	Enhancers	HUES6 Cell Line	embryonic stem cell
15	chr9:103992800-103995600	Enhancers	Brain Hippocampus Middle	brain
16	chr9:103992800-103997400	Weak transcription	Fetal Brain Male	brain
17	chr9:103993000-103994200	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr9:103993000-103997400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr9:103993000-103997400	Weak transcription	Brain Angular Gyrus	brain
20	chr9:103993200-103994600	Enhancers	iPS-18 Cell Line	embryonic stem cell
21	chr9:103993400-103993800	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
22	chr9:103993400-103995200	Enhancers	HepG2	liver
23	chr9:103993400-103995600	Enhancers	Fetal Adrenal Gland	Adrenal Gland

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