Variant report

Variant	rs12901913
Chromosome Location	chr15:78981348-78981349
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs1021071	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11072785	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11072790	0.96[EUR][1000 genomes]
rs11072791	0.93[EUR][1000 genomes]
rs11072792	0.87[EUR][1000 genomes]
rs11629637	0.88[EUR][1000 genomes]
rs11633178	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11634351	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11634543	0.94[EUR][1000 genomes]
rs11638372	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11638490	0.87[EUR][1000 genomes]
rs11638830	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11639049	0.91[EUR][1000 genomes]
rs11639166	0.91[EUR][1000 genomes]
rs11639181	0.91[EUR][1000 genomes]
rs11639347	0.91[EUR][1000 genomes]
rs11639372	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11639375	0.91[EUR][1000 genomes]
rs11639382	0.91[EUR][1000 genomes]
rs12899135	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12902602	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12910627	0.95[EUR][1000 genomes]
rs1825082	0.91[EUR][1000 genomes]
rs1825083	0.91[EUR][1000 genomes]
rs1996371	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2170311	0.87[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs2869554	0.82[EUR][1000 genomes]
rs2869566	0.86[EUR][1000 genomes]
rs34225855	0.87[EUR][1000 genomes]
rs34563625	0.84[EUR][1000 genomes]
rs35583595	0.88[EUR][1000 genomes]
rs3813565	0.86[EUR][1000 genomes]
rs4886579	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4886580	0.95[EUR][1000 genomes]
rs4886587	0.84[EUR][1000 genomes]
rs4887077	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4887086	0.84[EUR][1000 genomes]
rs4887087	0.85[EUR][1000 genomes]
rs6495314	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs71448817	0.81[EUR][1000 genomes]
rs72743199	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs922692	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917303	chr15:78491050-79205255	Enhancers Genic enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	122 gene(s)	inside rSNPs	diseases
2	nsv1045827	chr15:78907656-79004642	Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Active TSS Enhancers Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv457208	chr15:78908032-79019610	Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv570201	chr15:78908032-79019610	Bivalent Enhancer Bivalent/Poised TSS Strong transcription Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv974713	chr15:78945824-78996783	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv457209	chr15:78949127-78986805	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv471256	chr15:78949127-78986805	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv570203	chr15:78949127-78986805	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 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	chr15:78978400-78983400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
2	chr15:78978400-78983600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr15:78978400-78984600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr15:78978400-78984600	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr15:78978600-78983200	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr15:78978600-78983200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr15:78978600-78983400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr15:78978600-78983600	Weak transcription	Esophagus	oesophagus
9	chr15:78978600-78984000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr15:78978600-78985400	Weak transcription	Fetal Brain Female	brain
11	chr15:78978800-78983200	Weak transcription	Spleen	Spleen
12	chr15:78978800-78983400	Weak transcription	Fetal Stomach	stomach
13	chr15:78978800-78983600	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr15:78978800-78983600	Weak transcription	Fetal Muscle Trunk	muscle
15	chr15:78978800-78983800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr15:78979000-78985000	Weak transcription	Thymus	Thymus
17	chr15:78979000-78988400	Weak transcription	Left Ventricle	heart
18	chr15:78979200-78983600	Weak transcription	Adipose Nuclei	Adipose
19	chr15:78979200-78983600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr15:78979200-78985000	Weak transcription	Fetal Thymus	thymus
21	chr15:78981200-78983200	Weak transcription	Fetal Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links