Variant report

Variant	rs6434339
Chromosome Location	chr2:190179997-190179998
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 125 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:121)

rs_ID	r²[population]
rs10187060	0.85[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.89[YRI][hapmap]
rs10497703	0.95[CHB][hapmap];0.86[JPT][hapmap]
rs10755004	1.00[CEU][hapmap];0.90[CHB][hapmap];0.87[JPT][hapmap]
rs10931400	0.81[EUR][1000 genomes]
rs10931404	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10931414	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10931415	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10931416	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10931418	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10931419	0.81[EUR][1000 genomes]
rs1112578	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1157910	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap]
rs11677066	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11681286	0.87[EUR][1000 genomes]
rs11688021	0.82[EUR][1000 genomes]
rs11691604	0.81[CHB][hapmap];0.91[JPT][hapmap]
rs11695159	0.81[EUR][1000 genomes]
rs12104769	0.81[EUR][1000 genomes]
rs12105389	0.89[CEU][hapmap];0.80[CHB][hapmap];0.86[JPT][hapmap];0.84[EUR][1000 genomes]
rs12611950	0.86[EUR][1000 genomes]
rs12612412	0.81[EUR][1000 genomes]
rs12613876	0.82[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap]
rs12615823	0.85[EUR][1000 genomes]
rs12616234	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12618438	0.86[EUR][1000 genomes]
rs12621035	0.86[EUR][1000 genomes]
rs12621806	0.86[EUR][1000 genomes]
rs12621939	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12623723	0.81[EUR][1000 genomes]
rs12988143	0.95[CHB][hapmap];0.86[JPT][hapmap]
rs12990235	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12991770	0.86[EUR][1000 genomes]
rs12993719	0.87[EUR][1000 genomes]
rs12995956	0.81[EUR][1000 genomes]
rs12997620	0.81[EUR][1000 genomes]
rs12999122	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12999996	0.87[EUR][1000 genomes]
rs13004187	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13004722	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13005652	0.86[EUR][1000 genomes]
rs13005821	0.86[EUR][1000 genomes]
rs13010531	1.00[CEU][hapmap];0.95[CHB][hapmap];0.82[JPT][hapmap];0.81[YRI][hapmap]
rs13011374	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13011485	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13012327	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs13012649	0.80[EUR][1000 genomes]
rs13015283	0.88[CEU][hapmap];0.81[CHB][hapmap];0.95[JPT][hapmap];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13016231	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13017413	0.86[EUR][1000 genomes]
rs13019076	0.85[EUR][1000 genomes]
rs13021508	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13022633	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13028967	0.86[EUR][1000 genomes]
rs13029705	0.82[EUR][1000 genomes]
rs13031211	0.92[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap];0.87[EUR][1000 genomes]
rs13031549	0.82[CEU][hapmap];0.81[CHB][hapmap];0.91[JPT][hapmap]
rs13032853	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap]
rs13033421	0.81[EUR][1000 genomes]
rs13033841	0.80[EUR][1000 genomes]
rs1356162	0.88[EUR][1000 genomes]
rs1356164	0.89[CEU][hapmap];0.81[CHB][hapmap];0.95[JPT][hapmap];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1356165	0.92[CEU][hapmap];0.85[CHB][hapmap];0.95[JPT][hapmap];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1356167	0.89[CEU][hapmap];0.82[EUR][1000 genomes]
rs1356168	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs1356977	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1399991	0.89[CEU][hapmap];0.81[CHB][hapmap];0.86[JPT][hapmap];0.84[EUR][1000 genomes]
rs1399992	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1402368	0.81[EUR][1000 genomes]
rs1515874	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1515876	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1520855	0.81[EUR][1000 genomes]
rs1520857	1.00[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.81[EUR][1000 genomes]
rs1520859	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1520863	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1520864	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1568334	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1878085	0.90[EUR][1000 genomes]
rs1949484	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1949604	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1949605	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1965422	0.85[CEU][hapmap];0.86[JPT][hapmap];0.83[EUR][1000 genomes]
rs2138374	0.88[CEU][hapmap];0.85[EUR][1000 genomes]
rs2222256	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2351627	0.81[EUR][1000 genomes]
rs2351636	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35475196	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3914778	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4233801	0.86[EUR][1000 genomes]
rs4287797	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4353589	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4428040	0.80[EUR][1000 genomes]
rs4666774	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4667264	0.89[CEU][hapmap];0.81[EUR][1000 genomes]
rs4667265	0.89[CEU][hapmap];0.81[EUR][1000 genomes]
rs4667272	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4667274	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4667276	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4667277	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4667281	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap]
rs4667284	0.81[JPT][hapmap]
rs4998559	0.89[CEU][hapmap];0.81[CHB][hapmap];0.91[JPT][hapmap];0.86[EUR][1000 genomes]
rs60124911	0.90[EUR][1000 genomes]
rs6708419	0.89[CEU][hapmap];0.81[EUR][1000 genomes]
rs6714088	0.86[EUR][1000 genomes]
rs6719104	0.86[EUR][1000 genomes]
rs6728055	0.82[EUR][1000 genomes]
rs6737071	0.82[EUR][1000 genomes]
rs6745108	0.82[EUR][1000 genomes]
rs7419276	0.85[CEU][hapmap];0.95[CHB][hapmap];0.82[JPT][hapmap]
rs7419888	0.89[CEU][hapmap];0.81[CHB][hapmap];0.95[JPT][hapmap];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7561002	0.89[CEU][hapmap]
rs7564611	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7576165	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7587147	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7587956	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7588453	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7596592	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7607133	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7609495	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs963738	1.00[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap]
rs9679659	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533029	chr2:189812229-190554339	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv875613	chr2:189999011-190324685	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
3	nsv875614	chr2:190110841-190254758	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv961541	chr2:190172230-190181918	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription	TF binding region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:190176200-190180600	Enhancers	Primary T cells from cord blood	blood
2	chr2:190178600-190183400	Weak transcription	Fetal Thymus	thymus

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