Variant report

Variant	rs17774987
Chromosome Location	chr9:104341796-104341797
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10512283	0.81[EUR][1000 genomes]
rs10512284	0.81[EUR][1000 genomes]
rs10819954	0.81[EUR][1000 genomes]
rs10819955	0.81[EUR][1000 genomes]
rs10819956	0.81[EUR][1000 genomes]
rs10819958	0.81[EUR][1000 genomes]
rs10819959	0.81[EUR][1000 genomes]
rs10819961	0.81[EUR][1000 genomes]
rs10989572	0.81[EUR][1000 genomes]
rs1323427	0.81[EUR][1000 genomes]
rs13289501	0.81[EUR][1000 genomes]
rs1407873	0.81[EUR][1000 genomes]
rs1407874	0.81[EUR][1000 genomes]
rs1415643	1.00[CHB][hapmap]
rs17189275	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17189562	0.94[CEU][hapmap];0.88[JPT][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17189604	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17189821	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17197124	0.81[EUR][1000 genomes]
rs1853447	0.81[EUR][1000 genomes]
rs34888126	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35227408	0.81[EUR][1000 genomes]
rs35569161	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4266702	0.81[EUR][1000 genomes]
rs4442195	0.81[EUR][1000 genomes]
rs4743471	0.88[TSI][hapmap]
rs55731515	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs55749212	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs55838720	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs56052939	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs56073506	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56246731	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58830774	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72745350	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72745355	0.85[AMR][1000 genomes];0.92[EUR][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	nsv1046975	chr9:104167583-104659873	Weak transcription Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv949579	chr9:104229820-104512923	Genic enhancers Enhancers Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv1052492	chr9:104263419-104387782	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	nsv831672	chr9:104300755-104480849	Weak transcription Strong transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:104325200-104344400	Weak transcription	NHLF	lung
2	chr9:104325200-104350000	Weak transcription	HSMMtube	muscle
3	chr9:104327000-104344600	Weak transcription	Rectal Smooth Muscle	rectum
4	chr9:104327400-104348400	Weak transcription	Aorta	Aorta
5	chr9:104327600-104344400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr9:104327800-104344400	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr9:104328000-104342200	Weak transcription	Colon Smooth Muscle	Colon
8	chr9:104331800-104344600	Weak transcription	HSMM	muscle
9	chr9:104332400-104344600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr9:104333000-104342200	Weak transcription	Spleen	Spleen
11	chr9:104333000-104342400	Weak transcription	Brain Cingulate Gyrus	brain
12	chr9:104333000-104344400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr9:104333000-104344400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr9:104333000-104344800	Weak transcription	A549	lung
15	chr9:104333400-104342400	Weak transcription	Fetal Stomach	stomach
16	chr9:104335200-104344600	Weak transcription	HUES64 Cell Line	embryonic stem cell
17	chr9:104335400-104344600	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr9:104335400-104344800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
19	chr9:104335600-104344400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
20	chr9:104335600-104344600	Weak transcription	HUES48 Cell Line	embryonic stem cell
21	chr9:104335600-104346000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr9:104338200-104344400	Weak transcription	Fetal Brain Female	brain
23	chr9:104340400-104342600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr9:104340600-104342400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
25	chr9:104340600-104344000	Enhancers	Primary monocytes fromperipheralblood	blood
26	chr9:104341000-104343600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr9:104341200-104342200	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr9:104341200-104344200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
29	chr9:104341200-104344400	Weak transcription	HUES6 Cell Line	embryonic stem cell
30	chr9:104341200-104344400	Weak transcription	Fetal Brain Male	brain
31	chr9:104341200-104344600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
32	chr9:104341200-104344600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
33	chr9:104341600-104343000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood

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