Variant report

Variant	rs62490382
Chromosome Location	chr7:150384517-150384518
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:150384449..150386247-chr7:150390461..150392753,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GIMAP2-1	chr7:150384140-150384606	NONHSAT124147

Extended variants
information (count: 35 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10232092	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11983675	0.86[EUR][1000 genomes]
rs12703095	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12703097	0.85[EUR][1000 genomes]
rs13240273	0.88[EUR][1000 genomes]
rs13247782	0.84[EUR][1000 genomes]
rs1860871	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2041574	0.86[EUR][1000 genomes]
rs2109999	0.86[EUR][1000 genomes]
rs2159842	0.86[EUR][1000 genomes]
rs2286900	0.86[EUR][1000 genomes]
rs2373850	0.86[EUR][1000 genomes]
rs34531981	0.84[EUR][1000 genomes]
rs35370936	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35662160	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3735077	0.86[EUR][1000 genomes]
rs3735078	0.86[EUR][1000 genomes]
rs55821597	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62490385	0.89[EUR][1000 genomes]
rs67727004	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6945478	0.85[EUR][1000 genomes]
rs6953961	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6971135	0.86[EUR][1000 genomes]
rs6978252	0.86[EUR][1000 genomes]
rs7798682	0.86[EUR][1000 genomes]
rs9690530	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1034409	chr7:149844639-150447071	Flanking Active TSS Active TSS Genic enhancers Enhancers ZNF genes & repeats Bivalent Enhancer Weak transcription Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	75 gene(s)	inside rSNPs	diseases
2	nsv608990	chr7:149961274-150707488	Active TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
3	nsv1017368	chr7:150016952-150655773	Bivalent Enhancer ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
4	nsv539195	chr7:150016952-150655773	Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
5	esv2758617	chr7:150251949-150463804	Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
6	esv2759573	chr7:150251949-150463804	Weak transcription Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
7	nsv1030109	chr7:150312916-150701010	Enhancers Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
8	nsv967475	chr7:150323577-150610034	Enhancers Bivalent Enhancer Weak transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
9	nsv831187	chr7:150325913-150503500	Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:150382200-150385400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr7:150382400-150385000	Active TSS	Rectal Smooth Muscle	rectum
3	chr7:150382600-150384600	Active TSS	Primary T cells from cord blood	blood
4	chr7:150382600-150384600	Active TSS	Primary T helper cells PMA-I stimulated	--
5	chr7:150382600-150384600	Active TSS	Primary T helper 17 cells PMA-I stimulated	--
6	chr7:150382600-150384600	Active TSS	Primary T killer memory cells from peripheral blood	blood
7	chr7:150382600-150384800	Active TSS	Primary T cells fromperipheralblood	blood
8	chr7:150382600-150384800	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr7:150382600-150384800	Active TSS	Rectal Mucosa Donor 29	rectum
10	chr7:150382800-150384600	Active TSS	Primary T killer naive cells fromperipheralblood	blood
11	chr7:150382800-150384600	Active TSS	Monocytes-CD14+_RO01746	blood
12	chr7:150382800-150385000	Active TSS	Primary T helper naive cells from peripheral blood	blood
13	chr7:150383000-150384600	Active TSS	Primary T regulatory cells fromperipheralblood	blood
14	chr7:150383200-150384800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr7:150383200-150385600	Active TSS	Duodenum Mucosa	Duodenum
16	chr7:150383400-150387600	Transcr. at gene 5' and 3'	Dnd41	blood
17	chr7:150383400-150388400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr7:150383600-150384600	Active TSS	Primary T helper naive cells fromperipheralblood	blood
19	chr7:150383600-150384800	Weak transcription	Skeletal Muscle Male	skeletal muscle
20	chr7:150383600-150385400	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
21	chr7:150383600-150385600	Weak transcription	Lung	lung
22	chr7:150383600-150385600	Weak transcription	Ovary	ovary
23	chr7:150383600-150385600	Weak transcription	Stomach Mucosa	stomach
24	chr7:150383600-150386200	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr7:150383600-150387200	Weak transcription	Placenta	Placenta
26	chr7:150383600-150389400	Weak transcription	Fetal Stomach	stomach
27	chr7:150383600-150389600	Weak transcription	Fetal Muscle Leg	muscle
28	chr7:150383600-150390800	Weak transcription	Small Intestine	intestine
29	chr7:150383600-150391000	Weak transcription	Gastric	stomach
30	chr7:150383600-150391400	Weak transcription	Brain Substantia Nigra	brain
31	chr7:150383800-150384600	Weak transcription	Primary B cells from peripheral blood	blood
32	chr7:150383800-150384600	Enhancers	Primary hematopoietic stem cells	blood
33	chr7:150383800-150384600	Weak transcription	Liver	Liver
34	chr7:150383800-150384600	Weak transcription	Brain Hippocampus Middle	brain
35	chr7:150383800-150384600	Weak transcription	Thymus	Thymus
36	chr7:150383800-150384600	Weak transcription	Spleen	Spleen
37	chr7:150383800-150384800	Weak transcription	Colon Smooth Muscle	Colon
38	chr7:150383800-150384800	Enhancers	Fetal Thymus	thymus
39	chr7:150383800-150384800	Weak transcription	Rectal Mucosa Donor 31	rectum
40	chr7:150383800-150384800	Weak transcription	Right Ventricle	heart
41	chr7:150383800-150384800	Weak transcription	HUVEC	blood vessel
42	chr7:150383800-150385600	Weak transcription	Esophagus	oesophagus
43	chr7:150383800-150385600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr7:150383800-150385600	Weak transcription	Left Ventricle	heart
45	chr7:150383800-150386000	Weak transcription	Fetal Intestine Small	intestine
46	chr7:150383800-150387200	Weak transcription	Colonic Mucosa	Colon
47	chr7:150383800-150387200	Weak transcription	Duodenum Smooth Muscle	Duodenum
48	chr7:150383800-150387200	Weak transcription	Fetal Lung	lung
49	chr7:150383800-150387200	Weak transcription	Stomach Smooth Muscle	stomach
50	chr7:150383800-150392200	Weak transcription	Right Atrium	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links