Variant report

Variant	rs11135401
Chromosome Location	chr5:93365716-93365717
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs1031423	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10866760	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11135394	0.82[ASN][1000 genomes]
rs11948511	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13165221	0.81[ASN][1000 genomes]
rs13184801	0.81[ASN][1000 genomes]
rs13186432	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17083380	0.82[ASN][1000 genomes]
rs2043979	0.82[ASN][1000 genomes]
rs35672980	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6556833	0.81[ASN][1000 genomes]
rs6860390	0.82[AMR][1000 genomes]
rs6869110	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7708175	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7721668	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7727923	0.93[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7728825	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7732578	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7733142	0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7735009	0.82[AMR][1000 genomes];0.86[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	nsv532196	chr5:92933949-93573527	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv882384	chr5:93136661-93380123	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1023191	chr5:93351646-93947928	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
4	nsv537808	chr5:93351646-93947928	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	esv2753025	chr5:93356544-93812844	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:80 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:93327000-93394600	Weak transcription	Small Intestine	intestine
2	chr5:93345000-93395200	Weak transcription	Rectal Smooth Muscle	rectum
3	chr5:93346600-93365800	Weak transcription	Left Ventricle	heart
4	chr5:93346600-93376400	Weak transcription	Fetal Muscle Trunk	muscle
5	chr5:93347000-93380000	Weak transcription	Thymus	Thymus
6	chr5:93348400-93399000	Weak transcription	Esophagus	oesophagus
7	chr5:93348800-93367600	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr5:93348800-93394000	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr5:93349200-93375000	Weak transcription	Placenta	Placenta
10	chr5:93349200-93386200	Weak transcription	Spleen	Spleen
11	chr5:93351000-93394400	Weak transcription	Skeletal Muscle Female	skeletal muscle
12	chr5:93351800-93384200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
13	chr5:93352400-93367800	Weak transcription	Brain Germinal Matrix	brain
14	chr5:93353400-93394600	Weak transcription	Fetal Kidney	kidney
15	chr5:93354200-93367200	Weak transcription	Adipose Nuclei	Adipose
16	chr5:93354400-93384000	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr5:93354600-93368800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
18	chr5:93354800-93400200	Weak transcription	Duodenum Mucosa	Duodenum
19	chr5:93354800-93400200	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr5:93355000-93378800	Weak transcription	Fetal Brain Female	brain
21	chr5:93355000-93398400	Weak transcription	Right Ventricle	heart
22	chr5:93355800-93367400	Weak transcription	Psoas Muscle	Psoas
23	chr5:93355800-93367600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr5:93357200-93374400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr5:93357400-93393400	Weak transcription	Brain Hippocampus Middle	brain
26	chr5:93357600-93365800	Weak transcription	HSMM	muscle
27	chr5:93357600-93365800	Weak transcription	Monocytes-CD14+_RO01746	blood
28	chr5:93357600-93366800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr5:93357600-93367600	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr5:93357600-93368000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr5:93357600-93369600	Weak transcription	Aorta	Aorta
32	chr5:93357600-93378600	Weak transcription	Fetal Lung	lung
33	chr5:93357600-93379800	Weak transcription	Cortex derived primary cultured neurospheres	brain
34	chr5:93357600-93380000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr5:93357600-93385800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr5:93357600-93393400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr5:93357600-93394600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
38	chr5:93357800-93380000	Weak transcription	Sigmoid Colon	Sigmoid Colon
39	chr5:93357800-93399200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
40	chr5:93358000-93393000	Weak transcription	Stomach Smooth Muscle	stomach
41	chr5:93358200-93366800	Weak transcription	A549	lung
42	chr5:93358200-93376400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
43	chr5:93358200-93376400	Weak transcription	Fetal Stomach	stomach
44	chr5:93358200-93385400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
45	chr5:93358400-93369600	Weak transcription	Primary T cells fromperipheralblood	blood
46	chr5:93358400-93396800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
47	chr5:93358800-93366600	Weak transcription	Dnd41	blood
48	chr5:93359000-93368800	Weak transcription	Primary T helper cells fromperipheralblood	blood
49	chr5:93359000-93369600	Weak transcription	Primary B cells from peripheral blood	blood
50	chr5:93359000-93380400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links