Variant report

Variant	rs12668246
Chromosome Location	chr7:137004444-137004445
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10251438	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10255150	0.81[GIH][hapmap]
rs12535439	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12666148	0.94[CHB][hapmap];0.90[JPT][hapmap];0.95[ASN][1000 genomes]
rs12671280	0.85[JPT][hapmap]
rs13245564	0.84[CHB][hapmap];0.86[CHD][hapmap];0.85[JPT][hapmap]
rs1431093	0.81[GIH][hapmap]
rs161093	0.81[GIH][hapmap]
rs17169033	0.85[JPT][hapmap]
rs2242045	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];0.98[TSI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2882589	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs320715	0.81[GIH][hapmap]
rs320716	0.81[GIH][hapmap]
rs320719	0.81[GIH][hapmap]
rs6977749	0.85[JPT][hapmap]
rs6977819	0.85[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029192	chr7:136433278-137147566	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv831149	chr7:136831665-137006468	Flanking Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv889240	chr7:136972027-137038092	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv889241	chr7:136976713-137038092	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv869820	chr7:136990386-137347718	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:136982800-137008400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr7:136991600-137013000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr7:136993200-137007000	Genic enhancers	Cortex derived primary cultured neurospheres	brain
4	chr7:136998200-137010200	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr7:136998200-137013000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr7:136998600-137005600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr7:137000600-137004800	Weak transcription	Brain Anterior Caudate	brain
8	chr7:137001800-137016200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr7:137002000-137010400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr7:137002000-137013000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr7:137002000-137020000	Weak transcription	Fetal Stomach	stomach
12	chr7:137002200-137010000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr7:137002800-137005600	Weak transcription	Brain Substantia Nigra	brain
14	chr7:137002800-137005800	Weak transcription	Brain Hippocampus Middle	brain
15	chr7:137002800-137010000	Weak transcription	Brain Cingulate Gyrus	brain
16	chr7:137003400-137005800	Enhancers	iPS-18 Cell Line	embryonic stem cell
17	chr7:137003600-137004600	Enhancers	HUES48 Cell Line	embryonic stem cell
18	chr7:137003600-137005800	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr7:137003800-137005000	Enhancers	iPS-20b Cell Line	embryonic stem cell
20	chr7:137003800-137005600	Weak transcription	Brain Angular Gyrus	brain
21	chr7:137003800-137006800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr7:137003800-137009800	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr7:137004000-137004600	Enhancers	iPS-15b Cell Line	embryonic stem cell
24	chr7:137004400-137004800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links