Variant report

Variant	rs3909714
Chromosome Location	chr8:125968659-125968660
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr8:125826052..125829315-chr8:125964777..125971300,8	K562	blood:
2	chr8:125957863..125960286-chr8:125966886..125970018,3	K562	blood:
3	chr8:125551432..125553134-chr8:125968073..125971516,3	MCF-7	breast:
4	chr8:125607119..125608683-chr8:125967904..125969529,2	K562	blood:
5	chr8:125968439..125970169-chr8:125972216..125975033,2	K562	blood:
6	chr8:125968114..125970117-chr8:125983908..125986351,2	K562	blood:
7	chr8:125962237..125964397-chr8:125966163..125968875,2	MCF-7	breast:
8	chr8:125826052..125832853-chr8:125963334..125969415,10	K562	blood:

No data

Variant related genes	Relation type
ENSG00000147687	Chromatin interaction
ENSG00000180938	Chromatin interaction
ENSG00000249816	Chromatin interaction
ENSG00000255491	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs2382999	0.88[JPT][hapmap]
rs2555724	0.89[JPT][hapmap];0.94[ASN][1000 genomes]
rs2555725	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2590665	0.88[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs2590667	1.00[CHD][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2725878	1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28455785	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28558480	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28870400	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3866472	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3909715	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4006739	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4099573	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6651232	0.84[JPT][hapmap]

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	nsv891434	chr8:125630655-126324432	Strong transcription Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
2	nsv1030803	chr8:125868684-125969635	Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
3	nsv1024405	chr8:125868684-125971035	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
4	nsv1020502	chr8:125868684-125972572	Active TSS Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3909714	LINC00964	cis	Skin Sun Exposed Lower leg	GTEx

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:125960000-125969400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr8:125966400-125969600	Weak transcription	Primary T cells fromperipheralblood	blood
3	chr8:125968000-125969000	Enhancers	Fetal Intestine Small	intestine
4	chr8:125968000-125969000	Enhancers	Left Ventricle	heart
5	chr8:125968000-125969200	Enhancers	Liver	Liver
6	chr8:125968000-125969800	Enhancers	Right Ventricle	heart
7	chr8:125968000-125971600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
8	chr8:125968200-125968800	Enhancers	Duodenum Mucosa	Duodenum
9	chr8:125968200-125968800	Bivalent Enhancer	HepG2	liver
10	chr8:125968200-125968800	Flanking Active TSS	K562	blood
11	chr8:125968200-125969000	Enhancers	Primary hematopoietic stem cells short term culture	blood
12	chr8:125968200-125969000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr8:125968200-125969000	Enhancers	Fetal Heart	heart
14	chr8:125968200-125969000	Enhancers	Fetal Intestine Large	intestine
15	chr8:125968200-125969200	Enhancers	Right Atrium	heart
16	chr8:125968200-125969600	Enhancers	Adipose Nuclei	Adipose
17	chr8:125968200-125970800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr8:125968400-125968800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
19	chr8:125968400-125968800	Enhancers	Fetal Muscle Leg	muscle
20	chr8:125968400-125969000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr8:125968400-125969800	Enhancers	Fetal Muscle Trunk	muscle
22	chr8:125968400-125970800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr8:125968600-125969000	Enhancers	Sigmoid Colon	Sigmoid Colon
24	chr8:125968600-125969600	Enhancers	HUVEC	blood vessel
25	chr8:125968600-125969800	Bivalent Enhancer	NHDF-Ad	bronchial

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