Variant report

Variant	rs3814015
Chromosome Location	chr1:95089620-95089621
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-F3-2	chr1:95088275-95089740	XLOC_000922

Extended variants
information (count: 17 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12132926	0.90[ASN][1000 genomes]
rs12724134	0.83[AFR][1000 genomes]
rs12738550	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1361868	0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17403082	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17411572	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4847206	0.83[AFR][1000 genomes]
rs4847316	0.83[AFR][1000 genomes]
rs4847321	1.00[ASN][1000 genomes]
rs4847322	0.89[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs55923008	0.89[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs66472521	1.00[ASN][1000 genomes]
rs6694645	0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs72729587	0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1001587	chr1:95027691-95318680	Weak transcription Strong transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases
2	nsv519997	chr1:95083836-95113417	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv1001230	chr1:95085184-95108531	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:95084800-95090200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr1:95085000-95090200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr1:95085000-95090600	Enhancers	HMEC	breast
4	chr1:95085200-95089800	Enhancers	Breast Myoepithelial Primary Cells	Breast
5	chr1:95085200-95090000	Enhancers	NH-A	brain
6	chr1:95085200-95090600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr1:95085200-95090600	Enhancers	Placenta Amnion	Placenta Amnion
8	chr1:95085200-95090800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr1:95085400-95090000	Enhancers	Stomach Mucosa	stomach
10	chr1:95085800-95089800	Enhancers	Fetal Intestine Large	intestine
11	chr1:95086200-95090600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr1:95086400-95090200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr1:95086600-95091200	Enhancers	ES-I3 Cell Line	embryonic stem cell
14	chr1:95086800-95090000	Enhancers	Placenta	Placenta
15	chr1:95087000-95089800	Enhancers	HSMM	muscle
16	chr1:95087000-95089800	Enhancers	HSMMtube	muscle
17	chr1:95087000-95090200	Enhancers	NHEK	skin
18	chr1:95087600-95089800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr1:95087600-95090000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr1:95087600-95090000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr1:95087800-95089800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr1:95087800-95089800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr1:95087800-95091000	Enhancers	HUES6 Cell Line	embryonic stem cell
24	chr1:95088000-95090600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr1:95088000-95092000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
26	chr1:95088200-95090000	Enhancers	H9 Cell Line	embryonic stem cell
27	chr1:95088200-95090200	Enhancers	Fetal Stomach	stomach
28	chr1:95088200-95091000	Enhancers	iPS-15b Cell Line	embryonic stem cell
29	chr1:95088200-95091200	Enhancers	HUES48 Cell Line	embryonic stem cell
30	chr1:95088200-95091600	Enhancers	HUES64 Cell Line	embryonic stem cell
31	chr1:95088400-95090000	Enhancers	Fetal Lung	lung
32	chr1:95088400-95090000	Flanking Active TSS	Hela-S3	cervix
33	chr1:95088600-95090600	Enhancers	Fetal Muscle Trunk	muscle
34	chr1:95088800-95089800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr1:95088800-95090400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
36	chr1:95088800-95091600	Enhancers	iPS-18 Cell Line	embryonic stem cell
37	chr1:95088800-95094200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
38	chr1:95089000-95089800	Enhancers	Cortex derived primary cultured neurospheres	brain
39	chr1:95089000-95089800	Enhancers	Fetal Kidney	kidney
40	chr1:95089200-95089800	Enhancers	Fetal Heart	heart
41	chr1:95089200-95091200	Enhancers	H1 Cell Line	embryonic stem cell
42	chr1:95089200-95091400	Enhancers	iPS-20b Cell Line	embryonic stem cell
43	chr1:95089400-95090600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
44	chr1:95089600-95095200	Weak transcription	Fetal Intestine Small	intestine

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