Variant report

Variant	rs2842505
Chromosome Location	chr6:38014048-38014049
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10456458	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11751393	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11752354	1.00[JPT][hapmap]
rs11753390	1.00[JPT][hapmap]
rs11757086	1.00[CHB][hapmap];0.82[JPT][hapmap]
rs11757622	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11757695	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12194275	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12206414	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12214320	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12661200	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13196716	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs16890376	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17648634	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1967149	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2201645	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2295791	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4541739	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4714117	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4714120	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6458041	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6925259	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6925864	0.89[EUR][1000 genomes]
rs7747199	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7767466	1.00[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028825	chr6:37495154-38278320	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1017051	chr6:37789341-38084719	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv538203	chr6:37789341-38084719	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1020625	chr6:37833591-38155622	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
5	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
6	esv2754649	chr6:37985025-38147910	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
7	nsv970298	chr6:38003938-38014330	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37985000-38030200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr6:37995800-38020600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
3	chr6:37996000-38015400	Weak transcription	HSMMtube	muscle
4	chr6:37998600-38029200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr6:37999800-38017600	Weak transcription	Right Atrium	heart
6	chr6:37999800-38018600	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr6:38001000-38028600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr6:38002400-38029400	Weak transcription	Primary T cells fromperipheralblood	blood
9	chr6:38002800-38017800	Weak transcription	HSMM	muscle
10	chr6:38002800-38024400	Weak transcription	Fetal Stomach	stomach
11	chr6:38003000-38024800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr6:38003000-38025000	Weak transcription	Primary T helper cells PMA-I stimulated	--
13	chr6:38003200-38024400	Weak transcription	Primary T cells from cord blood	blood
14	chr6:38003600-38025400	Weak transcription	NHDF-Ad	bronchial
15	chr6:38003800-38017800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr6:38004000-38018000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr6:38004000-38018200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr6:38004200-38024600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr6:38004200-38029200	Weak transcription	Primary B cells from cord blood	blood
20	chr6:38006800-38024200	Weak transcription	Thymus	Thymus
21	chr6:38007400-38025400	Weak transcription	NH-A	brain
22	chr6:38007600-38018000	Weak transcription	Osteobl	bone
23	chr6:38008400-38028400	Weak transcription	Monocytes-CD14+_RO01746	blood
24	chr6:38009000-38019400	Weak transcription	A549	lung
25	chr6:38009200-38018800	Weak transcription	Right Ventricle	heart
26	chr6:38010600-38029000	Weak transcription	Primary hematopoietic stem cells	blood
27	chr6:38011600-38024200	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr6:38011800-38024200	Weak transcription	Psoas Muscle	Psoas
29	chr6:38011800-38029400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr6:38012000-38022400	Weak transcription	Colon Smooth Muscle	Colon
31	chr6:38012400-38029400	Weak transcription	Rectal Smooth Muscle	rectum
32	chr6:38012600-38016800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
33	chr6:38013800-38014400	Flanking Active TSS	HepG2	liver
34	chr6:38014000-38018000	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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