Variant report

Variant	rs7867089
Chromosome Location	chr9:21396216-21396217
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-IFNA2-1	chr9:21394887-21396345	ENSG00000261696.1

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10757217	1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs10757218	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs10811535	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10811538	0.90[EUR][1000 genomes]
rs10811551	1.00[CEU][hapmap]
rs10964981	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10964982	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10964985	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs10964986	0.88[EUR][1000 genomes]
rs10964998	0.86[EUR][1000 genomes]
rs10965002	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs10965005	1.00[CEU][hapmap]
rs10965008	1.00[CEU][hapmap]
rs10965019	1.00[CEU][hapmap]
rs10965024	1.00[CEU][hapmap]
rs12156640	1.00[CEU][hapmap]
rs12379502	0.86[EUR][1000 genomes]
rs12552330	0.86[ASN][1000 genomes]
rs1332180	0.82[EUR][1000 genomes]
rs16938384	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2383190	0.83[EUR][1000 genomes]
rs4978112	0.95[ASN][1000 genomes]
rs56106002	0.83[EUR][1000 genomes]
rs7034161	1.00[CEU][hapmap]
rs7851131	0.82[AFR][1000 genomes]
rs7861480	0.85[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv892724	chr9:20690244-21517302	Genic enhancers Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	153 gene(s)	inside rSNPs	diseases
2	nsv892737	chr9:21352862-21408824	Bivalent/Poised TSS Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	esv2752289	chr9:21361957-21499624	Weak transcription Active TSS Enhancers Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv892738	chr9:21371264-21413085	Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv466297	chr9:21391698-21507589	Enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv613758	chr9:21391698-21507589	Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:21395600-21396600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr9:21395600-21396600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr9:21395800-21396400	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
4	chr9:21395800-21396400	Bivalent/Poised TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr9:21395800-21396400	Bivalent/Poised TSS	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr9:21395800-21396400	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr9:21395800-21396400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr9:21395800-21396400	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
9	chr9:21395800-21396400	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
10	chr9:21395800-21396400	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
11	chr9:21395800-21396400	Bivalent/Poised TSS	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr9:21395800-21396400	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
13	chr9:21395800-21396400	Bivalent/Poised TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr9:21395800-21396400	Flanking Bivalent TSS/Enh	Primary monocytes fromperipheralblood	blood
15	chr9:21395800-21396400	Flanking Bivalent TSS/Enh	Primary neutrophils fromperipheralblood	blood
16	chr9:21395800-21396400	Flanking Bivalent TSS/Enh	Primary B cells from cord blood	blood
17	chr9:21395800-21396400	Flanking Bivalent TSS/Enh	Primary T cells fromperipheralblood	blood
18	chr9:21395800-21396400	Flanking Active TSS	Primary hematopoietic stem cells	blood
19	chr9:21395800-21396400	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr9:21395800-21396400	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr9:21395800-21396400	Bivalent/Poised TSS	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr9:21395800-21396400	Bivalent/Poised TSS	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr9:21395800-21396400	Flanking Bivalent TSS/Enh	Liver	Liver
24	chr9:21395800-21396400	Active TSS	Brain Angular Gyrus	brain
25	chr9:21395800-21396400	Active TSS	Brain Hippocampus Middle	brain
26	chr9:21395800-21396400	Active TSS	Brain Inferior Temporal Lobe	brain
27	chr9:21395800-21396400	Active TSS	Brain Substantia Nigra	brain
28	chr9:21395800-21396400	Active TSS	Colon Smooth Muscle	Colon
29	chr9:21395800-21396400	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland
30	chr9:21395800-21396400	Bivalent/Poised TSS	Fetal Kidney	kidney
31	chr9:21395800-21396400	Bivalent/Poised TSS	Pancreatic Islets	Pancreatic Islet
32	chr9:21395800-21396400	Bivalent/Poised TSS	Fetal Lung	lung
33	chr9:21395800-21396400	Flanking Bivalent TSS/Enh	Fetal Muscle Leg	muscle
34	chr9:21395800-21396400	Flanking Bivalent TSS/Enh	Fetal Stomach	stomach
35	chr9:21395800-21396400	Active TSS	Gastric	stomach
36	chr9:21395800-21396400	Bivalent/Poised TSS	Left Ventricle	heart
37	chr9:21395800-21396400	Bivalent/Poised TSS	Rectal Mucosa Donor 29	rectum
38	chr9:21395800-21396400	Bivalent/Poised TSS	Right Ventricle	heart
39	chr9:21395800-21396400	Bivalent/Poised TSS	A549	lung
40	chr9:21395800-21396400	Bivalent/Poised TSS	HSMMtube	muscle
41	chr9:21395800-21396400	Flanking Bivalent TSS/Enh	HUVEC	blood vessel
42	chr9:21395800-21396400	Flanking Bivalent TSS/Enh	Monocytes-CD14+_RO01746	blood
43	chr9:21395800-21396400	Bivalent/Poised TSS	NH-A	brain
44	chr9:21395800-21396400	Bivalent/Poised TSS	NHDF-Ad	bronchial
45	chr9:21395800-21396400	Bivalent/Poised TSS	NHLF	lung
46	chr9:21395800-21396600	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
47	chr9:21395800-21396600	Active TSS	H9 Cell Line	embryonic stem cell
48	chr9:21395800-21396600	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr9:21395800-21396600	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
50	chr9:21395800-21396600	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell

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