Variant report

Variant	rs1234357
Chromosome Location	chr7:150383517-150383518
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10254829	0.82[JPT][hapmap]
rs11769703	0.93[CHB][hapmap];0.90[JPT][hapmap]
rs12154435	0.88[ASN][1000 genomes]
rs12154436	0.88[ASN][1000 genomes]
rs1234356	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1234361	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12532045	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12537789	0.85[CHB][hapmap]
rs1316352	0.88[ASN][1000 genomes]
rs13225905	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13226190	0.82[ASN][1000 genomes]
rs13234724	0.93[CHB][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs1403220	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17542143	0.82[ASN][1000 genomes]
rs34030180	0.87[ASN][1000 genomes]
rs34396063	0.88[ASN][1000 genomes]
rs34585329	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34940374	0.84[ASN][1000 genomes]
rs35283918	0.83[ASN][1000 genomes]
rs35285840	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35329030	0.88[ASN][1000 genomes]
rs35760614	0.83[ASN][1000 genomes]
rs36020504	0.88[ASN][1000 genomes]
rs36065681	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3735080	0.82[JPT][hapmap]
rs3735086	0.93[CHB][hapmap];0.91[JPT][hapmap]
rs3807382	0.93[CHB][hapmap];0.91[JPT][hapmap]
rs56138121	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56279394	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56412316	0.88[ASN][1000 genomes]
rs59468128	0.87[ASN][1000 genomes]
rs62490361	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62490366	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62491812	0.82[ASN][1000 genomes]
rs62491814	0.84[ASN][1000 genomes]
rs62491829	0.88[ASN][1000 genomes]
rs73474862	0.88[ASN][1000 genomes]
rs7784050	0.82[JPT][hapmap]
rs7808446	0.82[JPT][hapmap]
rs954395	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1234357	GIMAP4	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:150382200-150383600	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr7:150382200-150383600	Active TSS	Colonic Mucosa	Colon
3	chr7:150382200-150383800	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
4	chr7:150382200-150383800	Active TSS	Brain Inferior Temporal Lobe	brain
5	chr7:150382200-150383800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
6	chr7:150382200-150383800	Active TSS	Stomach Smooth Muscle	stomach
7	chr7:150382200-150385400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr7:150382400-150383600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr7:150382400-150383600	Active TSS	Brain Cingulate Gyrus	brain
10	chr7:150382400-150383600	Active TSS	Fetal Muscle Trunk	muscle
11	chr7:150382400-150383600	Active TSS	Ovary	ovary
12	chr7:150382400-150383800	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
13	chr7:150382400-150383800	Active TSS	Brain Angular Gyrus	brain
14	chr7:150382400-150383800	Active TSS	Brain Hippocampus Middle	brain
15	chr7:150382400-150383800	Active TSS	Colon Smooth Muscle	Colon
16	chr7:150382400-150383800	Flanking Active TSS	HUVEC	blood vessel
17	chr7:150382400-150385000	Active TSS	Rectal Smooth Muscle	rectum
18	chr7:150382600-150383600	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
19	chr7:150382600-150383600	Active TSS	Liver	Liver
20	chr7:150382600-150383600	Active TSS	Brain Substantia Nigra	brain
21	chr7:150382600-150383600	Active TSS	Fetal Brain Male	brain
22	chr7:150382600-150383600	Active TSS	Fetal Kidney	kidney
23	chr7:150382600-150383600	Active TSS	Placenta	Placenta
24	chr7:150382600-150383600	Active TSS	Spleen	Spleen
25	chr7:150382600-150383800	Active TSS	Duodenum Smooth Muscle	Duodenum
26	chr7:150382600-150383800	Active TSS	Fetal Adrenal Gland	Adrenal Gland
27	chr7:150382600-150383800	Active TSS	Fetal Intestine Small	intestine
28	chr7:150382600-150383800	Active TSS	Left Ventricle	heart
29	chr7:150382600-150383800	Active TSS	Psoas Muscle	Psoas
30	chr7:150382600-150383800	Active TSS	Rectal Mucosa Donor 31	rectum
31	chr7:150382600-150383800	Active TSS	Right Atrium	heart
32	chr7:150382600-150383800	Active TSS	Right Ventricle	heart
33	chr7:150382600-150383800	Active TSS	Thymus	Thymus
34	chr7:150382600-150384600	Active TSS	Primary T cells from cord blood	blood
35	chr7:150382600-150384600	Active TSS	Primary T helper cells PMA-I stimulated	--
36	chr7:150382600-150384600	Active TSS	Primary T helper 17 cells PMA-I stimulated	--
37	chr7:150382600-150384600	Active TSS	Primary T killer memory cells from peripheral blood	blood
38	chr7:150382600-150384800	Active TSS	Primary T cells fromperipheralblood	blood
39	chr7:150382600-150384800	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
40	chr7:150382600-150384800	Active TSS	Rectal Mucosa Donor 29	rectum
41	chr7:150382800-150383600	Active TSS	Primary monocytes fromperipheralblood	blood
42	chr7:150382800-150383600	Active TSS	Skeletal Muscle Male	skeletal muscle
43	chr7:150382800-150383800	Active TSS	Fetal Lung	lung
44	chr7:150382800-150384200	Active TSS	GM12878-XiMat	blood
45	chr7:150382800-150384400	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
46	chr7:150382800-150384600	Active TSS	Primary T killer naive cells fromperipheralblood	blood
47	chr7:150382800-150384600	Active TSS	Monocytes-CD14+_RO01746	blood
48	chr7:150382800-150385000	Active TSS	Primary T helper naive cells from peripheral blood	blood
49	chr7:150383000-150383600	Transcr. at gene 5' and 3'	Primary T helper naive cells fromperipheralblood	blood
50	chr7:150383000-150383600	Active TSS	Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links