Variant report

Variant	rs2997685
Chromosome Location	chr9:72707609-72707610
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-KLF9-1	chr9:72707167-72707622	ENSG00000204706.10

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs17088691	1.00[ASN][1000 genomes]
rs1927149	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2975863	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2975920	0.83[EUR][1000 genomes]
rs2997674	0.93[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2997675	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2997680	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3015188	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7019336	0.82[AFR][1000 genomes];1.00[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:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:72694800-72708200	Enhancers	Breast Myoepithelial Primary Cells	Breast
2	chr9:72694800-72721400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr9:72695400-72709200	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr9:72696400-72708800	Weak transcription	Fetal Muscle Leg	muscle
5	chr9:72698200-72708800	Weak transcription	Psoas Muscle	Psoas
6	chr9:72698800-72711200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr9:72699000-72708800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr9:72703200-72711600	Enhancers	Colon Smooth Muscle	Colon
9	chr9:72704800-72708800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr9:72705400-72709400	Enhancers	Rectal Smooth Muscle	rectum
11	chr9:72705600-72707800	Enhancers	Stomach Smooth Muscle	stomach
12	chr9:72706000-72710200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr9:72706200-72709000	Weak transcription	HSMM	muscle
14	chr9:72706200-72710000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr9:72706400-72708400	Weak transcription	Ovary	ovary
16	chr9:72706400-72708800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr9:72706800-72708200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr9:72706800-72708600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr9:72706800-72709200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr9:72707000-72708200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr9:72707200-72709000	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr9:72707400-72726800	Weak transcription	Pancreas	Pancrea
23	chr9:72707600-72708800	Weak transcription	Left Ventricle	heart
24	chr9:72707600-72708800	Weak transcription	HSMMtube	muscle

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