Variant report

Variant	rs605204
Chromosome Location	chr9:22682877-22682878
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-DMRTA1-1	chr9:22682469-22683267	NONHSAT130441

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs1031289	0.81[ASN][1000 genomes]
rs10965431	0.81[ASN][1000 genomes]
rs1098967	0.93[ASN][1000 genomes]
rs1448771	0.81[ASN][1000 genomes]
rs1448790	0.84[CEU][hapmap];0.86[CHB][hapmap]
rs1448791	0.84[CEU][hapmap];0.86[CHB][hapmap]
rs1448792	0.85[CHB][hapmap]
rs1470616	0.81[ASN][1000 genomes]
rs1667083	0.81[ASN][1000 genomes]
rs1667087	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1992925	0.81[ASN][1000 genomes]
rs1992926	0.81[ASN][1000 genomes]
rs2122074	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3012992	0.80[ASN][1000 genomes]
rs484729	0.86[CHB][hapmap]
rs491563	0.81[ASN][1000 genomes]
rs499501	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs504114	0.86[JPT][hapmap]
rs518534	0.95[ASN][1000 genomes]
rs523296	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs527782	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs565595	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs570955	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs575588	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs578315	0.95[ASN][1000 genomes]
rs582341	0.84[CEU][hapmap];0.86[CHB][hapmap];0.80[ASN][1000 genomes]
rs583354	0.84[CEU][hapmap];0.86[CHB][hapmap]
rs589423	0.82[ASN][1000 genomes]
rs593909	0.81[ASN][1000 genomes]
rs613391	0.96[ASN][1000 genomes]
rs622693	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs636398	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs637242	0.96[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs639548	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs640677	0.84[ASN][1000 genomes]
rs6475673	0.81[ASN][1000 genomes]
rs6475674	0.81[ASN][1000 genomes]
rs664108	0.92[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs678038	0.92[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs682022	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs682908	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs688066	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs694541	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7043015	0.81[ASN][1000 genomes]
rs7874257	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs842837	0.81[CEU][hapmap];0.86[CHB][hapmap]
rs842838	0.84[CEU][hapmap];0.86[CHB][hapmap]
rs976730	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs976731	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531617	chr9:21985057-22809676	Genic enhancers Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv1029289	chr9:22193167-23023688	Flanking Active TSS Weak transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv869121	chr9:22382290-23232146	Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	esv2761508	chr9:22400968-22819938	Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv533941	chr9:22416549-23232146	Enhancers Active TSS Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv892759	chr9:22502851-22705094	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv892760	chr9:22562121-22765106	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	esv3427254	chr9:22597780-22693940	Flanking Active TSS Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv466299	chr9:22610366-22749670	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv613786	chr9:22610366-22749670	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
11	nsv892761	chr9:22625342-22690588	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
12	esv34240	chr9:22628700-22695593	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
13	esv2757327	chr9:22628931-22696345	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
14	esv2759681	chr9:22628931-22696345	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
15	nsv430007	chr9:22636541-22757714	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
16	nsv892763	chr9:22641633-22765106	Weak transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
17	nsv1030670	chr9:22669166-22697535	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
18	nsv892764	chr9:22680915-22755025	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Strong transcription	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:22679000-22687800	Weak transcription	Pancreas	Pancrea
2	chr9:22681000-22683400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr9:22681000-22684800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr9:22681600-22683200	Enhancers	Pancreatic Islets	Pancreatic Islet
5	chr9:22681600-22683400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr9:22681800-22683000	Enhancers	Skeletal Muscle Female	skeletal muscle
7	chr9:22682200-22683000	Enhancers	NHLF	lung
8	chr9:22682200-22683800	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr9:22682200-22684800	Enhancers	Hela-S3	cervix
10	chr9:22682600-22683000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr9:22682600-22683600	Enhancers	HUES6 Cell Line	embryonic stem cell
12	chr9:22682600-22683800	Enhancers	HUES48 Cell Line	embryonic stem cell
13	chr9:22682600-22684000	Enhancers	ES-I3 Cell Line	embryonic stem cell
14	chr9:22682600-22684200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr9:22682600-22684200	Enhancers	HMEC	breast
16	chr9:22682600-22684400	Enhancers	Muscle Satellite Cultured Cells	--
17	chr9:22682600-22684400	Enhancers	NH-A	brain
18	chr9:22682800-22683200	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
19	chr9:22682800-22683400	Weak transcription	NHDF-Ad	bronchial
20	chr9:22682800-22683600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
21	chr9:22682800-22683600	Enhancers	HSMM	muscle
22	chr9:22682800-22683600	Enhancers	HSMMtube	muscle
23	chr9:22682800-22684000	Enhancers	Duodenum Smooth Muscle	Duodenum
24	chr9:22682800-22684000	Enhancers	Osteobl	bone
25	chr9:22682800-22684200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr9:22682800-22685200	Strong transcription	Liver	Liver

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