Variant report

Variant	rs17070907
Chromosome Location	chr6:141772146-141772147
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GJE1-2	chr6:141768147-141772155	NONHSAT115295

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs12663100	0.83[AFR][1000 genomes];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12664187	0.83[EUR][1000 genomes]
rs1556671	0.85[AFR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1556672	0.85[AFR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1556673	0.85[AFR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1556674	0.85[AFR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1556675	0.85[AFR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1591419	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17070805	0.83[EUR][1000 genomes]
rs17070814	0.83[EUR][1000 genomes]
rs17070819	0.83[EUR][1000 genomes]
rs17070830	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17070863	0.81[AFR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17070871	0.85[AFR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17070882	0.85[AFR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1999690	0.80[AFR][1000 genomes];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2095473	0.81[EUR][1000 genomes]
rs2095474	0.82[EUR][1000 genomes]
rs2105047	0.83[EUR][1000 genomes]
rs2152229	0.85[AFR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2152230	0.82[AFR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2184528	0.85[AFR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2184529	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2184530	0.87[AFR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2225748	0.82[AFR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4521607	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4618541	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs55650336	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs55875012	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs56099233	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs56795193	0.93[AFR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs58565061	0.89[AFR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs58649382	0.85[AFR][1000 genomes];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs61189667	0.85[AFR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs72975097	0.83[EUR][1000 genomes]
rs72977013	0.82[AFR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72977020	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72977023	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72977050	0.85[AFR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72979057	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72981252	0.83[EUR][1000 genomes]
rs72981254	0.83[EUR][1000 genomes]
rs72981257	0.83[EUR][1000 genomes]
rs72981259	0.83[EUR][1000 genomes]
rs72981267	0.83[EUR][1000 genomes]
rs72981269	0.83[EUR][1000 genomes]
rs7747062	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7747611	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9484507	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9496005	0.83[EUR][1000 genomes]
rs9496006	0.83[EUR][1000 genomes]
rs9496008	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1019459	chr6:141051249-141862727	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv538453	chr6:141051249-141862727	ZNF genes & repeats Flanking Active TSS Strong transcription Weak transcription Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv532070	chr6:141057326-141865359	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1025922	chr6:141090901-141865360	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv538454	chr6:141090901-141865360	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv1029550	chr6:141372610-142029669	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
7	nsv886727	chr6:141610933-141793547	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv1015835	chr6:141713451-142233317	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv538455	chr6:141713451-142233317	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
10	esv2755719	chr6:141721907-142123546	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:141761800-141772600	Weak transcription	Psoas Muscle	Psoas
2	chr6:141764800-141772400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr6:141765000-141772400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr6:141767600-141772400	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr6:141767800-141772400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr6:141771000-141773600	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr6:141771200-141772800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr6:141771200-141772800	Enhancers	NHDF-Ad	bronchial
9	chr6:141771200-141773000	Enhancers	iPS-15b Cell Line	embryonic stem cell
10	chr6:141771200-141773000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
11	chr6:141771200-141773400	Enhancers	HUES48 Cell Line	embryonic stem cell
12	chr6:141771200-141773600	Enhancers	HUES64 Cell Line	embryonic stem cell
13	chr6:141771200-141773800	Enhancers	ES-I3 Cell Line	embryonic stem cell
14	chr6:141771200-141774000	Enhancers	iPS-20b Cell Line	embryonic stem cell
15	chr6:141771400-141772400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr6:141771400-141772400	Enhancers	Muscle Satellite Cultured Cells	--
17	chr6:141771400-141773400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr6:141771600-141774200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr6:141771800-141772600	Enhancers	HUES6 Cell Line	embryonic stem cell
20	chr6:141771800-141773600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr6:141771800-141774000	Enhancers	HUVEC	blood vessel
22	chr6:141772000-141772600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr6:141772000-141772600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr6:141772000-141772600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr6:141772000-141773800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr6:141772000-141774000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr6:141772000-141774000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr6:141772000-141774000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr6:141772000-141774000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr6:141772000-141774000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr6:141772000-141774000	Enhancers	Placenta Amnion	Placenta Amnion
32	chr6:141772000-141774000	Enhancers	HMEC	breast
33	chr6:141772000-141774000	Enhancers	HSMM	muscle
34	chr6:141772000-141774000	Enhancers	NH-A	brain
35	chr6:141772000-141774000	Enhancers	NHEK	skin
36	chr6:141772000-141774000	Enhancers	Osteobl	bone

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