Variant report

Variant	rs12439812
Chromosome Location	chr15:33852949-33852950
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 120 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:117)

rs_ID	r²[population]
rs1025578	0.91[ASN][1000 genomes]
rs1025579	0.89[CHB][hapmap];0.86[JPT][hapmap];0.91[ASN][1000 genomes]
rs1025581	0.89[CHB][hapmap];0.82[JPT][hapmap];0.89[ASN][1000 genomes]
rs1025582	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1030767	0.94[ASN][1000 genomes]
rs1030768	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1030769	0.94[ASN][1000 genomes]
rs1030770	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1030771	0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs10519828	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1077409	0.83[CHB][hapmap];0.85[JPT][hapmap];0.90[ASN][1000 genomes]
rs11072521	1.00[CEU][hapmap];0.85[CHB][hapmap];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11072523	1.00[CEU][hapmap];0.85[CHB][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11072524	1.00[CEU][hapmap];0.83[CHB][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11072545	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11630933	0.89[CHB][hapmap];0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs11634054	0.94[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs11634809	0.92[ASN][1000 genomes]
rs11635764	0.92[ASN][1000 genomes]
rs11637818	0.94[ASN][1000 genomes]
rs11639327	0.89[CHB][hapmap];0.86[JPT][hapmap];0.92[ASN][1000 genomes]
rs12899789	0.94[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs12903310	0.92[ASN][1000 genomes]
rs12909241	0.89[CHB][hapmap];0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs12909992	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1369305	0.89[CHB][hapmap];0.85[JPT][hapmap];0.91[ASN][1000 genomes]
rs1369306	0.89[CHB][hapmap];0.81[JPT][hapmap];0.89[ASN][1000 genomes]
rs1369310	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1435097	1.00[CEU][hapmap];0.89[CHB][hapmap];0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1435098	1.00[CEU][hapmap];0.89[CHB][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1435099	0.89[CHB][hapmap];0.85[JPT][hapmap];0.91[ASN][1000 genomes]
rs1435100	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1435101	0.89[CHB][hapmap];0.81[JPT][hapmap];0.89[ASN][1000 genomes]
rs1435102	0.89[CHB][hapmap];0.81[JPT][hapmap];0.89[ASN][1000 genomes]
rs1435103	1.00[CEU][hapmap];0.90[CHB][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1435105	0.98[EUR][1000 genomes]
rs1435106	1.00[CEU][hapmap];0.82[CHB][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1435118	0.86[JPT][hapmap]
rs1435120	0.94[ASN][1000 genomes]
rs1435121	0.94[CHB][hapmap];0.90[JPT][hapmap];0.94[ASN][1000 genomes]
rs1435122	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1435123	0.94[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs1435124	0.94[ASN][1000 genomes]
rs1529845	0.89[CHB][hapmap];0.86[JPT][hapmap];0.91[ASN][1000 genomes]
rs1529846	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1529847	0.91[ASN][1000 genomes]
rs1529848	0.89[CHB][hapmap];0.85[JPT][hapmap];0.91[ASN][1000 genomes]
rs1529849	0.83[CHB][hapmap];0.85[JPT][hapmap];0.90[ASN][1000 genomes]
rs1529850	0.89[CHB][hapmap];0.86[JPT][hapmap];0.91[ASN][1000 genomes]
rs1560965	0.89[CHB][hapmap];0.86[JPT][hapmap];0.91[ASN][1000 genomes]
rs1560966	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1579583	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1594955	0.95[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs1836548	0.90[EUR][1000 genomes]
rs1865495	0.83[CHB][hapmap];0.85[JPT][hapmap];0.91[ASN][1000 genomes]
rs1865496	0.89[CHB][hapmap];0.86[JPT][hapmap];0.91[ASN][1000 genomes]
rs1865499	0.95[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs2060453	0.94[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2117574	0.98[EUR][1000 genomes]
rs2164250	0.91[ASN][1000 genomes]
rs2304379	0.94[ASN][1000 genomes]
rs2339306	0.94[ASN][1000 genomes]
rs2339307	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2339308	0.95[ASN][1000 genomes]
rs2339309	0.94[CHB][hapmap];0.95[JPT][hapmap]
rs2339310	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2437136	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2572199	1.00[CEU][hapmap];0.89[CHB][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2572200	0.84[CHB][hapmap];0.81[JPT][hapmap];0.86[ASN][1000 genomes]
rs2572202	0.84[CHB][hapmap];0.87[JPT][hapmap];0.84[ASN][1000 genomes]
rs2572203	1.00[CEU][hapmap];0.89[CHB][hapmap];0.88[EUR][1000 genomes]
rs2596218	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2643365	0.86[JPT][hapmap]
rs3794581	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3794582	0.92[ASN][1000 genomes]
rs3829476	0.95[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs3829477	0.95[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs3829478	0.94[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs4503763	0.94[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs4779620	0.91[ASN][1000 genomes]
rs4779621	0.88[ASN][1000 genomes]
rs4780123	0.91[ASN][1000 genomes]
rs4780124	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4780125	0.89[CHB][hapmap];0.86[JPT][hapmap];0.92[ASN][1000 genomes]
rs4780127	0.90[ASN][1000 genomes]
rs589134	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs619196	0.86[JPT][hapmap]
rs620150	0.86[JPT][hapmap]
rs622365	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs674155	0.86[JPT][hapmap]
rs680388	0.86[JPT][hapmap]
rs680851	0.86[JPT][hapmap]
rs682639	0.86[JPT][hapmap]
rs683141	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs683484	0.86[JPT][hapmap]
rs683553	0.86[JPT][hapmap]
rs7162590	0.92[ASN][1000 genomes]
rs7164455	0.94[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs7165400	0.87[ASN][1000 genomes]
rs7165619	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7170881	0.95[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7172763	1.00[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs721667	0.95[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs8030946	1.00[CEU][hapmap];0.86[JPT][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs8033477	0.95[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs8040445	0.89[CHB][hapmap];0.86[JPT][hapmap];0.91[ASN][1000 genomes]
rs892770	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs892771	1.00[CEU][hapmap];0.90[CHB][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs892772	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs892773	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs892775	0.83[CHB][hapmap];0.87[ASN][1000 genomes]
rs892776	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9302270	0.91[ASN][1000 genomes]
rs9302271	0.87[CHB][hapmap];0.84[JPT][hapmap];0.91[ASN][1000 genomes]
rs957467	0.83[CHB][hapmap];0.81[JPT][hapmap];0.85[ASN][1000 genomes]
rs967091	0.90[CHB][hapmap];0.82[ASN][1000 genomes]
rs968275	0.86[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043046	chr15:33714908-34321330	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	esv34041	chr15:33720726-33871487	Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	esv34037	chr15:33732616-34049083	Enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 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	chr15:33827400-33877200	Weak transcription	Skeletal Muscle Male	skeletal muscle
2	chr15:33833200-33858400	Weak transcription	Fetal Muscle Trunk	muscle
3	chr15:33841600-33857200	Weak transcription	Fetal Brain Female	brain
4	chr15:33844800-33860200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr15:33845400-33855200	Weak transcription	Stomach Smooth Muscle	stomach
6	chr15:33846400-33857600	Weak transcription	Fetal Muscle Leg	muscle
7	chr15:33846400-33872000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr15:33848600-33853600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr15:33851000-33854400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
10	chr15:33851000-33854600	Enhancers	HUES48 Cell Line	embryonic stem cell
11	chr15:33851200-33854000	Enhancers	iPS-20b Cell Line	embryonic stem cell
12	chr15:33851200-33854200	Enhancers	HUES64 Cell Line	embryonic stem cell
13	chr15:33851200-33854400	Enhancers	iPS-18 Cell Line	embryonic stem cell
14	chr15:33851800-33853000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr15:33851800-33853400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr15:33851800-33853400	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr15:33851800-33856800	Weak transcription	Aorta	Aorta
18	chr15:33851800-33857800	Weak transcription	Brain Anterior Caudate	brain
19	chr15:33852400-33853200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr15:33852600-33853400	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr15:33852600-33853600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr15:33852800-33853200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr15:33852800-33853200	Weak transcription	HUES6 Cell Line	embryonic stem cell

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