Variant report

Variant	rs10511620
Chromosome Location	chr9:16424834-16424835
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C9orf92-2	chr9:16424469-16426173	NONHSAT130288

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10511621	1.00[CEU][hapmap];0.94[TSI][hapmap];0.98[EUR][1000 genomes]
rs16934621	1.00[CEU][hapmap];0.87[TSI][hapmap]
rs16934644	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.92[MKK][hapmap];0.94[TSI][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16934647	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs16934660	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16934675	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes]
rs16934679	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[MKK][hapmap];0.87[TSI][hapmap];0.94[EUR][1000 genomes]
rs16934681	0.82[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1927622	1.00[CEU][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1927623	0.82[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1927624	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1927625	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2296862	1.00[CEU][hapmap];0.82[MEX][hapmap];0.94[TSI][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2296863	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2296864	1.00[CEU][hapmap];0.87[TSI][hapmap];0.81[EUR][1000 genomes]
rs3739715	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[TSI][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3814110	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[TSI][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs41313973	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs41313975	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs57010092	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57310704	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57937957	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58105894	0.88[EUR][1000 genomes]
rs59049761	0.88[EUR][1000 genomes]
rs60299869	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs60573475	0.88[EUR][1000 genomes]
rs61159596	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs61393085	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7021534	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs7041544	0.90[EUR][1000 genomes]
rs7851973	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs7867445	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7871743	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530933	chr9:16251206-16830845	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv530934	chr9:16281246-16779432	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:16415400-16425600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr9:16416200-16435400	Weak transcription	Fetal Muscle Leg	muscle
3	chr9:16418000-16425200	Weak transcription	Fetal Kidney	kidney
4	chr9:16418000-16435600	Weak transcription	HUVEC	blood vessel
5	chr9:16418200-16427600	Weak transcription	Rectal Smooth Muscle	rectum
6	chr9:16418200-16435800	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr9:16418400-16425200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr9:16418800-16427400	Weak transcription	Colon Smooth Muscle	Colon
9	chr9:16419200-16425400	Weak transcription	Fetal Lung	lung
10	chr9:16419400-16425200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr9:16419400-16425200	Weak transcription	Adipose Nuclei	Adipose
12	chr9:16419400-16436200	Weak transcription	Fetal Muscle Trunk	muscle
13	chr9:16419600-16425200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr9:16419600-16425400	Weak transcription	NHLF	lung
15	chr9:16419600-16425400	Weak transcription	Osteobl	bone
16	chr9:16419600-16435200	Weak transcription	Fetal Intestine Large	intestine
17	chr9:16419600-16435400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr9:16419600-16435400	Weak transcription	Stomach Smooth Muscle	stomach
19	chr9:16419800-16432600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr9:16420800-16425000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr9:16421800-16425200	Weak transcription	A549	lung
22	chr9:16421800-16425200	Weak transcription	HSMMtube	muscle
23	chr9:16421800-16425400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
24	chr9:16421800-16425600	Weak transcription	H9 Cell Line	embryonic stem cell
25	chr9:16421800-16428200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr9:16421800-16431800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
27	chr9:16421800-16460400	Weak transcription	Aorta	Aorta
28	chr9:16422000-16425200	Weak transcription	Fetal Stomach	stomach
29	chr9:16422000-16425200	Weak transcription	Ovary	ovary
30	chr9:16422000-16425600	Weak transcription	H1 Cell Line	embryonic stem cell
31	chr9:16422000-16429800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr9:16422000-16435400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr9:16422200-16425200	Weak transcription	Muscle Satellite Cultured Cells	--
34	chr9:16422200-16425400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr9:16422200-16425600	Weak transcription	HUES6 Cell Line	embryonic stem cell
36	chr9:16422200-16426400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr9:16422400-16425200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
38	chr9:16422400-16425400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
39	chr9:16422400-16429800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
40	chr9:16422600-16425600	Weak transcription	HUES64 Cell Line	embryonic stem cell
41	chr9:16422800-16425200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
42	chr9:16422800-16425400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr9:16422800-16425400	Weak transcription	HUES48 Cell Line	embryonic stem cell
44	chr9:16422800-16435400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
45	chr9:16424000-16425000	Weak transcription	HSMM	muscle

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