Variant report

Variant	rs12667652
Chromosome Location	chr7:39074572-39074573
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs1000869	0.87[ASN][1000 genomes]
rs10248136	0.82[ASN][1000 genomes]
rs1116811	0.86[CHB][hapmap]
rs11972294	0.86[ASN][1000 genomes]
rs11973171	0.90[CEU][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.87[ASN][1000 genomes]
rs11976438	0.84[AFR][1000 genomes]
rs12532009	0.86[CHB][hapmap]
rs12538487	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12669446	1.00[CEU][hapmap]
rs12670003	0.90[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs12671046	0.90[CEU][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.87[ASN][1000 genomes]
rs12674371	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13242896	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1525798	0.86[CHB][hapmap]
rs1527952	0.86[CHB][hapmap]
rs17171519	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6462886	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6462887	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6944670	0.95[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6945380	0.86[CHB][hapmap]
rs6952464	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6974522	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7779853	0.86[CHB][hapmap]
rs7785889	0.84[CHB][hapmap]
rs7801660	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv1024142	chr7:38978728-39300444	Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv887967	chr7:39009307-39090698	Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:39072000-39075000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr7:39072400-39083200	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr7:39073400-39074800	Enhancers	iPS-20b Cell Line	embryonic stem cell
4	chr7:39073600-39074600	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
5	chr7:39073600-39075800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr7:39073800-39074800	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr7:39074000-39074800	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr7:39074000-39074800	Enhancers	HUES6 Cell Line	embryonic stem cell
9	chr7:39074000-39074800	Enhancers	HUES64 Cell Line	embryonic stem cell
10	chr7:39074000-39075800	Enhancers	H1 Cell Line	embryonic stem cell
11	chr7:39074000-39075800	Enhancers	iPS-15b Cell Line	embryonic stem cell
12	chr7:39074000-39075800	Active TSS	Brain Angular Gyrus	brain
13	chr7:39074000-39075800	Active TSS	Brain Inferior Temporal Lobe	brain
14	chr7:39074200-39074800	Enhancers	ES-I3 Cell Line	embryonic stem cell
15	chr7:39074200-39074800	Weak transcription	Brain Germinal Matrix	brain
16	chr7:39074200-39075000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr7:39074200-39075800	Active TSS	Fetal Brain Female	brain
18	chr7:39074400-39074800	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr7:39074400-39075400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr7:39074400-39075400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr7:39074400-39075600	Active TSS	Brain Anterior Caudate	brain

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