Variant report

Variant	rs10037986
Chromosome Location	chr5:116032125-116032126
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SEMA6A-6	chr5:116032091-116032405	NONHSAT103376
2	lnc-SEMA6A-6	chr5:116032091-116032233	FPKM1_group_26180_transcript_1

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10038005	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10040214	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10043155	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10072522	0.86[AMR][1000 genomes]
rs1027291	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs1027292	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1196	0.85[ASN][1000 genomes]
rs1197	0.88[ASN][1000 genomes]
rs12108958	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12109367	0.80[EUR][1000 genomes]
rs12516894	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17140312	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17140330	0.97[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2933593	0.93[ASN][1000 genomes]
rs2933607	0.97[ASN][1000 genomes]
rs2933608	0.97[ASN][1000 genomes]
rs2933614	0.92[ASN][1000 genomes]
rs2933616	0.81[ASN][1000 genomes]
rs2933617	0.85[ASN][1000 genomes]
rs2933627	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs2933628	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs2933630	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs2933633	0.95[CHB][hapmap];0.91[JPT][hapmap];0.86[ASN][1000 genomes]
rs2964648	0.91[ASN][1000 genomes]
rs2964649	0.91[ASN][1000 genomes]
rs2964653	0.94[ASN][1000 genomes]
rs2964655	0.92[ASN][1000 genomes]
rs2964657	0.92[ASN][1000 genomes]
rs2964658	0.86[ASN][1000 genomes]
rs2964659	0.92[ASN][1000 genomes]
rs2964662	0.87[ASN][1000 genomes]
rs2964701	0.96[CHB][hapmap];1.00[JPT][hapmap]
rs2964702	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4512159	0.91[ASN][1000 genomes]
rs4920860	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4920925	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4920926	0.97[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4920927	0.92[ASN][1000 genomes]
rs4920928	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs55946451	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72663324	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72663325	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72663326	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7701326	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7711109	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7728276	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7728633	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2763490	chr5:115918339-116138525	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv830456	chr5:115969066-116170718	Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv527974	chr5:115987168-116303678	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv462403	chr5:115994775-116284378	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv599485	chr5:115994775-116284378	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv1030056	chr5:116008971-116278725	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:116030400-116032200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr5:116031000-116032800	Enhancers	iPS-18 Cell Line	embryonic stem cell
3	chr5:116031200-116032200	Enhancers	ES-I3 Cell Line	embryonic stem cell
4	chr5:116031400-116032600	Enhancers	HUES6 Cell Line	embryonic stem cell
5	chr5:116031400-116032600	Enhancers	HUES64 Cell Line	embryonic stem cell
6	chr5:116031400-116032600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr5:116031400-116032600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr5:116031400-116032600	Enhancers	Fetal Lung	lung
9	chr5:116031400-116032800	Enhancers	iPS-20b Cell Line	embryonic stem cell
10	chr5:116031400-116032800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr5:116031400-116033000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr5:116031600-116032600	Enhancers	HUES48 Cell Line	embryonic stem cell
13	chr5:116031600-116032600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
14	chr5:116031600-116032800	Enhancers	iPS-15b Cell Line	embryonic stem cell
15	chr5:116031600-116033000	Enhancers	Cortex derived primary cultured neurospheres	brain
16	chr5:116031800-116032200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr5:116031800-116032400	Enhancers	Fetal Stomach	stomach
18	chr5:116031800-116032600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
19	chr5:116031800-116032600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr5:116031800-116032600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr5:116031800-116033000	Enhancers	Ovary	ovary
22	chr5:116032000-116032200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr5:116032000-116032200	Enhancers	Brain Anterior Caudate	brain
24	chr5:116032000-116032400	Enhancers	H1 Cell Line	embryonic stem cell
25	chr5:116032000-116032400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
26	chr5:116032000-116032400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr5:116032000-116032400	Enhancers	H9 Cell Line	embryonic stem cell
28	chr5:116032000-116032600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
29	chr5:116032000-116032800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr5:116032000-116032800	Flanking Active TSS	GM12878-XiMat	blood

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