Variant report

Variant	rs9403138
Chromosome Location	chr6:140373006-140373007
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 115 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:111)

rs_ID	r²[population]
rs10434888	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10872525	1.00[CEU][hapmap];0.96[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.82[EUR][1000 genomes]
rs1119397	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.81[EUR][1000 genomes]
rs12174980	0.81[EUR][1000 genomes]
rs12175776	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12660474	0.81[EUR][1000 genomes]
rs12660560	1.00[CEU][hapmap];0.96[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.81[EUR][1000 genomes]
rs12662046	0.81[EUR][1000 genomes]
rs12662151	0.83[EUR][1000 genomes]
rs12662747	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12663480	1.00[CEU][hapmap];0.96[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.81[EUR][1000 genomes]
rs12664312	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13191189	0.94[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.85[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs13204837	1.00[CEU][hapmap]
rs1324130	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1416289	0.87[CEU][hapmap]
rs1496112	0.81[EUR][1000 genomes]
rs1496113	0.81[EUR][1000 genomes]
rs1587171	0.81[EUR][1000 genomes]
rs1603348	0.81[EUR][1000 genomes]
rs1603349	0.81[EUR][1000 genomes]
rs17069736	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17069768	1.00[CEU][hapmap];0.96[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17069852	0.82[EUR][1000 genomes]
rs17069854	0.82[EUR][1000 genomes]
rs2020197	0.80[EUR][1000 genomes]
rs34358600	0.82[EUR][1000 genomes]
rs34753441	0.81[EUR][1000 genomes]
rs34984534	0.81[EUR][1000 genomes]
rs35332737	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35392782	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35465283	0.82[EUR][1000 genomes]
rs36074095	0.83[EUR][1000 genomes]
rs36126113	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56044741	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62431097	0.82[EUR][1000 genomes]
rs66460448	0.84[EUR][1000 genomes]
rs71562538	0.83[EUR][1000 genomes]
rs724061	0.90[CEU][hapmap]
rs72973906	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7758187	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.81[EUR][1000 genomes]
rs7761894	0.82[EUR][1000 genomes]
rs7763294	0.91[CHB][hapmap];0.87[JPT][hapmap];0.81[ASN][1000 genomes]
rs9373256	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9373258	0.82[EUR][1000 genomes]
rs9373259	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.82[EUR][1000 genomes]
rs9373260	0.81[EUR][1000 genomes]
rs9373261	1.00[CEU][hapmap];0.96[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.83[EUR][1000 genomes]
rs9373262	0.81[EUR][1000 genomes]
rs9376485	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9376493	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9376494	1.00[CEU][hapmap];0.96[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9376495	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9376496	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9376497	0.82[EUR][1000 genomes]
rs9376498	0.83[EUR][1000 genomes]
rs9376500	0.82[EUR][1000 genomes]
rs9376502	0.82[EUR][1000 genomes]
rs9376503	0.81[EUR][1000 genomes]
rs9376504	0.82[EUR][1000 genomes]
rs9385895	1.00[CEU][hapmap];0.96[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9385896	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9385897	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9385899	0.83[EUR][1000 genomes]
rs9385900	0.84[EUR][1000 genomes]
rs9385901	0.88[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.82[EUR][1000 genomes]
rs9385902	1.00[CEU][hapmap];0.95[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.82[EUR][1000 genomes]
rs9385903	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.83[EUR][1000 genomes]
rs9385906	0.81[EUR][1000 genomes]
rs9389733	0.95[CEU][hapmap]
rs9389741	1.00[CEU][hapmap];0.96[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9389743	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9389744	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9389745	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9389746	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9389748	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9389749	0.83[EUR][1000 genomes]
rs9389750	0.82[EUR][1000 genomes]
rs9389751	0.82[EUR][1000 genomes]
rs9389753	0.81[EUR][1000 genomes]
rs9389755	0.83[EUR][1000 genomes]
rs9389757	0.83[EUR][1000 genomes]
rs9389760	0.82[EUR][1000 genomes]
rs9389763	0.81[EUR][1000 genomes]
rs9389767	1.00[CEU][hapmap];0.96[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.81[EUR][1000 genomes]
rs9389768	1.00[CEU][hapmap];0.96[CHB][hapmap];0.91[JPT][hapmap];0.81[EUR][1000 genomes]
rs9399298	0.95[CEU][hapmap]
rs9399303	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9399304	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9399305	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9399306	0.88[ASN][1000 genomes]
rs9399307	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9399308	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.82[EUR][1000 genomes]
rs9399310	0.81[EUR][1000 genomes]
rs9403134	0.95[CEU][hapmap]
rs9403135	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9403139	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9403143	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9403145	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9403146	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9403147	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9403148	1.00[CEU][hapmap];0.96[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.83[EUR][1000 genomes]
rs9403149	0.83[EUR][1000 genomes]
rs9403150	0.82[EUR][1000 genomes]
rs9403151	0.82[EUR][1000 genomes]
rs9403153	0.82[EUR][1000 genomes]
rs9403155	0.81[EUR][1000 genomes]
rs9403156	1.00[CEU][hapmap];0.96[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.81[EUR][1000 genomes]
rs9403157	0.81[EUR][1000 genomes]
rs9403159	0.81[EUR][1000 genomes]
rs9484347	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	nsv869066	chr6:139777114-140639695	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
2	nsv1016532	chr6:140174639-141029988	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
3	nsv1019508	chr6:140317472-140434466	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1022987	chr6:140344229-140463916	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:140365600-140374200	Weak transcription	A549	lung
2	chr6:140369400-140374600	Enhancers	Hela-S3	cervix
3	chr6:140370000-140373600	Enhancers	Pancreatic Islets	Pancreatic Islet
4	chr6:140370200-140373800	Enhancers	Fetal Heart	heart
5	chr6:140370600-140374800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr6:140370600-140375400	Enhancers	Muscle Satellite Cultured Cells	--
7	chr6:140370800-140373400	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr6:140370800-140373800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr6:140370800-140374800	Enhancers	Placenta Amnion	Placenta Amnion
10	chr6:140370800-140375000	Enhancers	NH-A	brain
11	chr6:140371200-140374000	Enhancers	ES-I3 Cell Line	embryonic stem cell
12	chr6:140371200-140374600	Enhancers	Fetal Brain Male	brain
13	chr6:140371200-140374600	Enhancers	Osteobl	bone
14	chr6:140371400-140373400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr6:140371400-140373600	Enhancers	HSMM	muscle
16	chr6:140371400-140374800	Enhancers	HMEC	breast
17	chr6:140371400-140374800	Enhancers	NHEK	skin
18	chr6:140371400-140374800	Enhancers	NHLF	lung
19	chr6:140371400-140375000	Enhancers	NHDF-Ad	bronchial
20	chr6:140371600-140374600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr6:140371600-140375400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr6:140371600-140379400	Weak transcription	Placenta	Placenta
23	chr6:140371800-140373400	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr6:140371800-140374000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr6:140372000-140373200	Enhancers	HUVEC	blood vessel
26	chr6:140372000-140373400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr6:140372200-140373200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr6:140372200-140373200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr6:140372200-140373800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr6:140372200-140375200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr6:140372400-140373600	Weak transcription	Liver	Liver
32	chr6:140372400-140375000	Enhancers	Brain Germinal Matrix	brain
33	chr6:140372800-140373200	Enhancers	Colon Smooth Muscle	Colon
34	chr6:140372800-140373400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr6:140372800-140373800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr6:140372800-140374200	Enhancers	Cortex derived primary cultured neurospheres	brain
37	chr6:140372800-140374200	Enhancers	Fetal Brain Female	brain
38	chr6:140372800-140374400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr6:140372800-140375000	Enhancers	Breast Myoepithelial Primary Cells	Breast
40	chr6:140373000-140373200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
41	chr6:140373000-140373400	Enhancers	HSMMtube	muscle
42	chr6:140373000-140374800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr6:140373000-140375000	Enhancers	Fetal Intestine Small	intestine

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