Variant report

Variant	rs12538487
Chromosome Location	chr7:39075380-39075381
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs1000869	0.87[ASN][1000 genomes]
rs10248136	0.82[ASN][1000 genomes]
rs11972294	0.86[ASN][1000 genomes]
rs11973171	0.87[ASN][1000 genomes]
rs11976438	0.84[AFR][1000 genomes]
rs12667652	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12670003	0.86[ASN][1000 genomes]
rs12671046	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]
rs17171519	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6462886	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	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6952464	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6974522	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7801660	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	chr7:39072400-39083200	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr7:39073600-39075800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr7:39074000-39075800	Enhancers	H1 Cell Line	embryonic stem cell
4	chr7:39074000-39075800	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr7:39074000-39075800	Active TSS	Brain Angular Gyrus	brain
6	chr7:39074000-39075800	Active TSS	Brain Inferior Temporal Lobe	brain
7	chr7:39074200-39075800	Active TSS	Fetal Brain Female	brain
8	chr7:39074400-39075400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr7:39074400-39075400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr7:39074400-39075600	Active TSS	Brain Anterior Caudate	brain
11	chr7:39074800-39075400	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
12	chr7:39074800-39075400	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
13	chr7:39074800-39075400	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
14	chr7:39074800-39075800	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr7:39074800-39075800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr7:39075000-39075400	Active TSS	ES-I3 Cell Line	embryonic stem cell
17	chr7:39075000-39075400	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr7:39075000-39075400	Active TSS	HUES6 Cell Line	embryonic stem cell
19	chr7:39075000-39076000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr7:39075200-39075800	Enhancers	Cortex derived primary cultured neurospheres	brain
21	chr7:39075200-39076000	Enhancers	HUES48 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links