Variant report

Variant	rs7619080
Chromosome Location	chr3:99898886-99898887
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C3orf26-1	chr3:99898411-99900574	ENSG00000261533.1
2	lnc-C3orf26-1	chr3:99898452-99900574	NONHSAT090862

Extended variants
information (count: 21 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10222474	0.84[ASN][1000 genomes]
rs12487143	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2130369	0.85[ASN][1000 genomes]
rs6767441	0.84[ASN][1000 genomes]
rs6798114	0.83[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs720688	0.85[ASN][1000 genomes]
rs7629487	0.84[ASN][1000 genomes]
rs7641782	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7652706	0.83[EUR][1000 genomes]
rs9289981	0.84[ASN][1000 genomes]
rs9814549	0.83[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs9837131	0.81[ASN][1000 genomes]
rs9849632	0.84[ASN][1000 genomes]
rs9865713	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817478	chr3:99474086-99955548	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv916476	chr3:99478229-100124625	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
3	nsv869848	chr3:99652246-99904276	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1010579	chr3:99660754-99901817	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
5	nsv1008483	chr3:99660754-99903769	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
6	nsv1010897	chr3:99660754-99904783	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
7	nsv591148	chr3:99774720-99905803	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99871400-99899400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr3:99877600-99904600	Weak transcription	Right Ventricle	heart
3	chr3:99892600-99904200	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr3:99895000-99904600	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr3:99897000-99899000	ZNF genes & repeats	Dnd41	blood
6	chr3:99897000-99899400	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr3:99897000-99899600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr3:99897000-99900000	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
9	chr3:99897200-99899000	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
10	chr3:99897200-99899000	ZNF genes & repeats	iPS-15b Cell Line	embryonic stem cell
11	chr3:99897200-99899200	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
12	chr3:99897200-99899200	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
13	chr3:99897200-99899600	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
14	chr3:99897200-99900000	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr3:99897400-99899000	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr3:99897400-99899000	ZNF genes & repeats	Primary B cells from peripheral blood	blood
17	chr3:99897400-99899000	ZNF genes & repeats	Primary hematopoietic stem cells	blood
18	chr3:99897400-99899000	ZNF genes & repeats	Lung	lung
19	chr3:99897400-99899000	Strong transcription	Skeletal Muscle Female	skeletal muscle
20	chr3:99897400-99899000	Strong transcription	Stomach Smooth Muscle	stomach
21	chr3:99897400-99899000	ZNF genes & repeats	Thymus	Thymus
22	chr3:99897400-99899200	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
23	chr3:99897400-99899200	ZNF genes & repeats	Fetal Intestine Small	intestine
24	chr3:99897400-99899400	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
25	chr3:99897400-99899400	ZNF genes & repeats	Fetal Lung	lung
26	chr3:99897400-99899400	ZNF genes & repeats	GM12878-XiMat	blood
27	chr3:99897400-99899600	ZNF genes & repeats	Primary B cells from cord blood	blood
28	chr3:99897400-99899600	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr3:99897400-99899600	ZNF genes & repeats	Fetal Muscle Trunk	muscle
30	chr3:99897400-99899800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr3:99897600-99899200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
32	chr3:99897600-99899200	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr3:99897600-99899200	ZNF genes & repeats	Brain Inferior Temporal Lobe	brain
34	chr3:99897600-99899400	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
35	chr3:99897600-99899400	Weak transcription	K562	blood
36	chr3:99897600-99899600	ZNF genes & repeats	Primary T cells from cord blood	blood
37	chr3:99897600-99899600	ZNF genes & repeats	Fetal Muscle Leg	muscle
38	chr3:99897600-99899800	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr3:99897800-99899000	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr3:99897800-99899200	ZNF genes & repeats	Primary T cells fromperipheralblood	blood
41	chr3:99897800-99899200	ZNF genes & repeats	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr3:99897800-99899200	ZNF genes & repeats	Fetal Stomach	stomach
43	chr3:99897800-99899400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
44	chr3:99897800-99899400	ZNF genes & repeats	Adipose Nuclei	Adipose
45	chr3:99897800-99899400	ZNF genes & repeats	Duodenum Mucosa	Duodenum
46	chr3:99897800-99899600	ZNF genes & repeats	Fetal Adrenal Gland	Adrenal Gland
47	chr3:99898200-99899000	ZNF genes & repeats	Brain Germinal Matrix	brain
48	chr3:99898200-99899400	ZNF genes & repeats	Brain Hippocampus Middle	brain
49	chr3:99898400-99899000	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin01	Skin
50	chr3:99898400-99899000	ZNF genes & repeats	Aorta	Aorta

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