Variant report

Variant	rs3015184
Chromosome Location	chr9:72701745-72701746
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-KLF9-1	chr9:72700732-72702546	NONHSAT131793
2	lnc-KLF9-1	chr9:72700732-72702546	ENSG00000204706.10

Extended variants
information (count: 88 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:84)

rs_ID	r²[population]
rs10114215	0.83[ASN][1000 genomes]
rs10511979	0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1112232	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12002407	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12003971	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12683706	0.85[ASN][1000 genomes]
rs12684987	0.85[ASN][1000 genomes]
rs12685632	0.90[ASN][1000 genomes]
rs12685937	0.88[ASN][1000 genomes]
rs12685939	0.90[ASN][1000 genomes]
rs12686383	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12686573	0.81[ASN][1000 genomes]
rs12686668	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12686850	0.83[ASN][1000 genomes]
rs17087686	0.91[ASN][1000 genomes]
rs17088796	0.85[ASN][1000 genomes]
rs17088840	0.85[ASN][1000 genomes]
rs17088889	0.85[ASN][1000 genomes]
rs17088905	0.83[ASN][1000 genomes]
rs17523363	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1927105	0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1927110	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1927116	0.85[ASN][1000 genomes]
rs1927117	0.83[ASN][1000 genomes]
rs1927119	0.83[ASN][1000 genomes]
rs1986412	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2001235	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2148865	0.83[ASN][1000 genomes]
rs2296772	0.93[ASN][1000 genomes]
rs2296773	0.93[ASN][1000 genomes]
rs2309584	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2871290	0.85[ASN][1000 genomes]
rs2975866	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2975867	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2975868	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2975880	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2975884	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2975911	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2997668	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2997679	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2997681	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2997714	0.84[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs3015165	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3015169	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3015170	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3015171	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3015173	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3015174	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3015175	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3015177	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3015180	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3015181	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3015182	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3015185	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3015186	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3015189	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3015198	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3015204	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3015207	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3015213	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3015223	0.96[ASN][1000 genomes]
rs35188046	0.85[ASN][1000 genomes]
rs3829096	0.89[ASN][1000 genomes]
rs4289878	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4460447	0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4495496	0.93[ASN][1000 genomes]
rs4744982	0.85[ASN][1000 genomes]
rs56735283	0.81[ASN][1000 genomes]
rs57048128	0.81[ASN][1000 genomes]
rs58085049	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58660710	0.90[ASN][1000 genomes]
rs58969772	0.83[ASN][1000 genomes]
rs59189596	0.85[ASN][1000 genomes]
rs59589460	0.85[ASN][1000 genomes]
rs59619263	0.85[ASN][1000 genomes]
rs61265226	0.83[ASN][1000 genomes]
rs61416419	0.93[ASN][1000 genomes]
rs7022893	0.83[ASN][1000 genomes]
rs72709197	0.90[ASN][1000 genomes]
rs72709200	0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72710469	0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72710483	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs745852	0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs867595	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][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	nsv893438	chr9:72363992-72720438	Weak transcription Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
2	nsv1049457	chr9:72539144-72765913	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv831613	chr9:72586058-72740061	Weak transcription Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv949052	chr9:72698039-72741247	Enhancers Genic enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:72694800-72704400	Enhancers	Rectal Smooth Muscle	rectum
2	chr9:72694800-72708200	Enhancers	Breast Myoepithelial Primary Cells	Breast
3	chr9:72694800-72721400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr9:72695400-72709200	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr9:72696400-72701800	Weak transcription	Right Ventricle	heart
6	chr9:72696400-72706200	Weak transcription	Left Ventricle	heart
7	chr9:72696400-72706600	Weak transcription	Fetal Brain Female	brain
8	chr9:72696400-72708800	Weak transcription	Fetal Muscle Leg	muscle
9	chr9:72696800-72705800	Weak transcription	HSMM	muscle
10	chr9:72698200-72706000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr9:72698200-72708800	Weak transcription	Psoas Muscle	Psoas
12	chr9:72698800-72711200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr9:72699000-72708800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr9:72700600-72701800	Weak transcription	HSMMtube	muscle
15	chr9:72701400-72701800	Enhancers	Fetal Stomach	stomach
16	chr9:72701400-72702000	Enhancers	Pancreas	Pancrea
17	chr9:72701400-72702200	Enhancers	Duodenum Smooth Muscle	Duodenum
18	chr9:72701400-72702200	Enhancers	Ovary	ovary
19	chr9:72701400-72702400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
20	chr9:72701400-72702400	Enhancers	Stomach Smooth Muscle	stomach
21	chr9:72701400-72703200	Genic enhancers	Colon Smooth Muscle	Colon
22	chr9:72701600-72706400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr9:72701600-72706600	Weak transcription	Adipose Nuclei	Adipose

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