Variant report

Variant	rs1015600
Chromosome Location	chr2:37068272-37068273
allele	A/C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-STRN-1	chr2:37067534-37069337	NONHSAT070091

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs1043290	0.98[ASN][1000 genomes]
rs10490659	0.90[EUR][1000 genomes]
rs11124549	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11124552	0.95[EUR][1000 genomes]
rs11676225	0.90[EUR][1000 genomes]
rs11678303	0.90[EUR][1000 genomes]
rs11682966	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11686605	0.85[EUR][1000 genomes]
rs11691236	0.85[EUR][1000 genomes]
rs12624290	0.81[ASN][1000 genomes]
rs13020894	0.84[ASN][1000 genomes]
rs13027958	0.80[ASN][1000 genomes]
rs17020005	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17020024	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17442690	0.94[ASN][1000 genomes]
rs17442739	0.94[ASN][1000 genomes]
rs1861433	0.89[ASN][1000 genomes]
rs1861434	0.94[ASN][1000 genomes]
rs1861436	0.94[ASN][1000 genomes]
rs2160379	0.84[ASN][1000 genomes]
rs2216106	0.84[ASN][1000 genomes]
rs2255330	0.92[ASN][1000 genomes]
rs2287087	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2372812	0.98[ASN][1000 genomes]
rs2540918	0.81[ASN][1000 genomes]
rs2540920	0.81[ASN][1000 genomes]
rs2540925	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2540931	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2540936	0.85[ASN][1000 genomes]
rs2540939	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2540940	0.94[ASN][1000 genomes]
rs2540941	0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2541002	0.85[EUR][1000 genomes]
rs2691104	0.81[ASN][1000 genomes]
rs2691109	0.84[ASN][1000 genomes]
rs2691110	0.84[ASN][1000 genomes]
rs2691118	0.81[ASN][1000 genomes]
rs2691122	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2706805	0.81[EUR][1000 genomes]
rs2717492	0.81[ASN][1000 genomes]
rs2717495	0.89[ASN][1000 genomes]
rs2717496	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2717500	0.87[EUR][1000 genomes]
rs2717501	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2717505	0.89[ASN][1000 genomes]
rs2717508	0.92[ASN][1000 genomes]
rs2717509	0.92[ASN][1000 genomes]
rs2717510	0.98[ASN][1000 genomes]
rs2717511	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2717512	0.98[ASN][1000 genomes]
rs2717518	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2888418	0.96[ASN][1000 genomes]
rs41486347	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs55993128	0.90[EUR][1000 genomes]
rs56186144	0.90[EUR][1000 genomes]
rs57671539	0.90[EUR][1000 genomes]
rs57884362	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs58970461	0.90[EUR][1000 genomes]
rs59854977	0.85[EUR][1000 genomes]
rs6715033	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6739553	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6756876	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs723673	0.94[ASN][1000 genomes]
rs73924932	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73924952	0.85[EUR][1000 genomes]
rs9789527	0.94[ASN][1000 genomes]
rs9789649	0.92[ASN][1000 genomes]
rs998321	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1004483	chr2:36875235-37356812	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv535644	chr2:36875235-37356812	Weak transcription Strong transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv428395	chr2:36990348-37300352	Active TSS Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
4	nsv1011014	chr2:37027819-37095895	Weak transcription Strong transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
5	nsv999465	chr2:37029347-37095895	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:37060800-37070000	Weak transcription	HSMM	muscle
2	chr2:37062400-37074000	Weak transcription	Primary T helper cells fromperipheralblood	blood
3	chr2:37062400-37075800	Weak transcription	Brain Germinal Matrix	brain
4	chr2:37062600-37069400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr2:37062800-37073800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr2:37062800-37076000	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr2:37062800-37095600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr2:37063000-37069600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr2:37063000-37071000	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr2:37063000-37071200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr2:37063000-37074000	Weak transcription	Dnd41	blood
12	chr2:37063000-37074200	Weak transcription	Primary T cells from cord blood	blood
13	chr2:37063000-37076200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr2:37063000-37093600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
15	chr2:37063200-37074200	Weak transcription	HUVEC	blood vessel
16	chr2:37063800-37069600	Weak transcription	NHEK	skin
17	chr2:37064000-37076000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr2:37065800-37074000	Weak transcription	Primary hematopoietic stem cells	blood
19	chr2:37065800-37104200	Weak transcription	Right Ventricle	heart
20	chr2:37066000-37069600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr2:37066000-37076200	Weak transcription	Lung	lung
22	chr2:37066200-37075200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr2:37066400-37076200	Weak transcription	Fetal Stomach	stomach
24	chr2:37066800-37069600	Weak transcription	Brain Hippocampus Middle	brain
25	chr2:37066800-37076200	Weak transcription	Brain Substantia Nigra	brain
26	chr2:37066800-37092800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr2:37067400-37071400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr2:37067400-37076000	Weak transcription	Brain Cingulate Gyrus	brain
29	chr2:37067400-37076400	Weak transcription	Aorta	Aorta
30	chr2:37067400-37083800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr2:37067400-37103200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr2:37067600-37070800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
33	chr2:37067600-37071000	Weak transcription	HUES48 Cell Line	embryonic stem cell
34	chr2:37067600-37071000	Weak transcription	HUES64 Cell Line	embryonic stem cell
35	chr2:37067600-37071000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
36	chr2:37067600-37071200	Weak transcription	H1 Cell Line	embryonic stem cell
37	chr2:37067600-37074000	Weak transcription	Duodenum Mucosa	Duodenum
38	chr2:37067600-37074000	Weak transcription	Left Ventricle	heart
39	chr2:37067600-37074000	Weak transcription	Rectal Mucosa Donor 31	rectum
40	chr2:37067600-37074200	Weak transcription	Adipose Nuclei	Adipose
41	chr2:37067600-37074200	Weak transcription	Sigmoid Colon	Sigmoid Colon
42	chr2:37067600-37075200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr2:37067600-37075200	Weak transcription	Fetal Intestine Large	intestine
44	chr2:37067600-37075200	Weak transcription	Ovary	ovary
45	chr2:37067600-37076200	Weak transcription	Brain Inferior Temporal Lobe	brain
46	chr2:37067600-37076400	Weak transcription	Cortex derived primary cultured neurospheres	brain
47	chr2:37067600-37083800	Weak transcription	H9 Cell Line	embryonic stem cell
48	chr2:37067600-37103000	Weak transcription	Small Intestine	intestine
49	chr2:37067600-37146200	Weak transcription	Psoas Muscle	Psoas
50	chr2:37067800-37069600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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