Variant report

Variant	rs787170
Chromosome Location	chr2:144695167-144695168
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ARHGAP15-2	chr2:144694640-144695203	ENSG00000232377.1
2	lnc-ARHGAP15-2	chr2:144694634-144695203	NR_110237

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs12612842	0.89[ASN][1000 genomes]
rs12613814	0.92[JPT][hapmap]
rs12614766	0.90[JPT][hapmap]
rs12618509	0.89[ASN][1000 genomes]
rs12619798	0.90[CHB][hapmap];0.87[CHD][hapmap];0.89[GIH][hapmap];0.92[JPT][hapmap];0.89[ASN][1000 genomes]
rs12621041	0.89[ASN][1000 genomes]
rs16823361	0.89[CHB][hapmap];0.92[JPT][hapmap];0.89[ASN][1000 genomes]
rs16823373	0.90[CHB][hapmap];0.87[CHD][hapmap];0.92[JPT][hapmap];0.89[ASN][1000 genomes]
rs16823382	0.90[CHB][hapmap];0.83[CHD][hapmap];0.86[JPT][hapmap];0.89[ASN][1000 genomes]
rs16823481	0.84[JPT][hapmap]
rs16823487	0.83[JPT][hapmap]
rs1861878	0.92[JPT][hapmap]
rs1864245	0.80[CHB][hapmap];0.92[JPT][hapmap]
rs2111671	0.90[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs35790422	0.89[ASN][1000 genomes]
rs3755088	0.90[CHB][hapmap];0.87[CHD][hapmap];0.92[JPT][hapmap];0.89[ASN][1000 genomes]
rs3820756	1.00[JPT][hapmap]
rs56123489	0.89[ASN][1000 genomes]
rs58186643	0.89[ASN][1000 genomes]
rs60305932	0.89[ASN][1000 genomes]
rs61202373	0.89[ASN][1000 genomes]
rs72851896	0.89[ASN][1000 genomes]
rs72852907	0.89[ASN][1000 genomes]
rs72852908	0.89[ASN][1000 genomes]
rs72852911	0.89[ASN][1000 genomes]
rs72852913	0.89[ASN][1000 genomes]
rs72852918	0.89[ASN][1000 genomes]
rs72852924	0.88[ASN][1000 genomes]
rs7572132	0.90[CHB][hapmap];0.92[JPT][hapmap];0.89[ASN][1000 genomes]
rs952200	1.00[ASW][hapmap]
rs9678811	0.90[CHB][hapmap];0.87[CHD][hapmap];0.92[JPT][hapmap];0.89[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	nsv532755	chr2:144631279-145270874	Enhancers Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv1006344	chr2:144657716-145334899	Bivalent Enhancer Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv535951	chr2:144657716-145334899	Enhancers Strong transcription Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv1067624	chr2:144657717-145425705	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
5	nsv531413	chr2:144657717-145425705	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
6	nsv875260	chr2:144675354-144703126	Flanking Bivalent TSS/Enh Active TSS Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv583247	chr2:144682018-144697113	Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:144692200-144695800	Active TSS	Pancreatic Islets	Pancreatic Islet
2	chr2:144692400-144696200	Active TSS	Right Atrium	heart
3	chr2:144692600-144695800	Active TSS	Ovary	ovary
4	chr2:144693000-144695800	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr2:144693400-144696000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr2:144693600-144695400	Bivalent/Poised TSS	Rectal Smooth Muscle	rectum
7	chr2:144693600-144695600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr2:144693600-144695600	Active TSS	Brain Cingulate Gyrus	brain
9	chr2:144693600-144696000	Active TSS	Brain Anterior Caudate	brain
10	chr2:144693800-144695600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr2:144693800-144695600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
12	chr2:144693800-144695600	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
13	chr2:144693800-144696000	Active TSS	Brain Hippocampus Middle	brain
14	chr2:144694000-144695200	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr2:144694000-144695400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr2:144694000-144695400	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--
17	chr2:144694000-144695400	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr2:144694000-144695400	Active TSS	Fetal Brain Female	brain
19	chr2:144694000-144695400	Active TSS	HSMMtube	muscle
20	chr2:144694000-144695400	Active TSS	Osteobl	bone
21	chr2:144694000-144695600	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
22	chr2:144694000-144695600	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr2:144694000-144695600	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr2:144694000-144695600	Active TSS	Brain Angular Gyrus	brain
25	chr2:144694000-144695600	Active TSS	Colon Smooth Muscle	Colon
26	chr2:144694000-144695800	Active TSS	Brain Substantia Nigra	brain
27	chr2:144694000-144695800	Bivalent/Poised TSS	Rectal Mucosa Donor 31	rectum
28	chr2:144694000-144696000	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
29	chr2:144694000-144696000	Bivalent Enhancer	Primary T helper cells fromperipheralblood	blood
30	chr2:144694000-144696000	Active TSS	Brain Inferior Temporal Lobe	brain
31	chr2:144694000-144696200	Active TSS	NHDF-Ad	bronchial
32	chr2:144694200-144695200	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
33	chr2:144694200-144695200	Flanking Bivalent TSS/Enh	Cortex derived primary cultured neurospheres	brain
34	chr2:144694200-144695200	Flanking Bivalent TSS/Enh	HMEC	breast
35	chr2:144694200-144695200	Flanking Bivalent TSS/Enh	Monocytes-CD14+_RO01746	blood
36	chr2:144694200-144695400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr2:144694200-144695400	Active TSS	Gastric	stomach
38	chr2:144694200-144695400	Flanking Active TSS	Pancreas	Pancrea
39	chr2:144694200-144695600	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
40	chr2:144694200-144695600	Flanking Active TSS	Liver	Liver
41	chr2:144694200-144695600	Active TSS	Fetal Kidney	kidney
42	chr2:144694200-144695600	Flanking Active TSS	Stomach Smooth Muscle	stomach
43	chr2:144694200-144695600	Bivalent/Poised TSS	A549	lung
44	chr2:144694400-144695200	Flanking Bivalent TSS/Enh	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr2:144694400-144695200	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr2:144694400-144695200	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
47	chr2:144694400-144695200	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
48	chr2:144694400-144695200	Bivalent Enhancer	Primary T cells effector/memory enriched fromperipheralblood	blood
49	chr2:144694400-144695200	Active TSS	Muscle Satellite Cultured Cells	--
50	chr2:144694400-144695200	Flanking Bivalent TSS/Enh	Primary mononuclear cells fromperipheralblood	Blood

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