Variant report

Variant	rs6462872
Chromosome Location	chr7:38924871-38924872
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs11980882	0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12670221	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12674115	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17768711	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17768753	0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2108507	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34724372	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61363591	0.93[ASN][1000 genomes]
rs6956146	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6975048	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73357792	0.86[EUR][1000 genomes]
rs7780490	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7780625	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7800167	0.98[AFR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv887966	chr7:38835035-38933942	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv830967	chr7:38913837-39069253	Flanking Bivalent TSS/Enh Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:38879800-38938000	Weak transcription	Right Ventricle	heart
2	chr7:38886200-38947800	Weak transcription	Stomach Smooth Muscle	stomach
3	chr7:38889400-38948200	Weak transcription	Gastric	stomach
4	chr7:38889600-38932600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr7:38893800-38925600	Weak transcription	Thymus	Thymus
6	chr7:38898600-38928800	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr7:38903800-38939600	Weak transcription	A549	lung
8	chr7:38903800-38947000	Weak transcription	Small Intestine	intestine
9	chr7:38905000-38925600	Weak transcription	Fetal Intestine Small	intestine
10	chr7:38905600-38937800	Weak transcription	Colonic Mucosa	Colon
11	chr7:38906000-38947800	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr7:38908000-38941000	Weak transcription	Colon Smooth Muscle	Colon
13	chr7:38908200-38925600	Weak transcription	Fetal Stomach	stomach
14	chr7:38908200-38932800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr7:38908200-38933800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr7:38908200-38935000	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr7:38908200-38935400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr7:38908200-38935400	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr7:38908200-38938600	Weak transcription	Rectal Smooth Muscle	rectum
20	chr7:38908600-38925800	Weak transcription	HUES64 Cell Line	embryonic stem cell
21	chr7:38908600-38935200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr7:38908800-38925000	Weak transcription	Fetal Muscle Leg	muscle
23	chr7:38908800-38925600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr7:38908800-38925800	Weak transcription	Fetal Muscle Trunk	muscle
25	chr7:38908800-38932600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr7:38908800-38934200	Weak transcription	Primary T helper cells fromperipheralblood	blood
27	chr7:38908800-38935400	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr7:38908800-38943000	Weak transcription	Esophagus	oesophagus
29	chr7:38908800-38947800	Weak transcription	HUES48 Cell Line	embryonic stem cell
30	chr7:38908800-38948000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
31	chr7:38909000-38933800	Weak transcription	Rectal Mucosa Donor 29	rectum
32	chr7:38909000-38934200	Weak transcription	Duodenum Mucosa	Duodenum
33	chr7:38909000-38947800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
34	chr7:38910200-38929600	Weak transcription	Primary T cells from cord blood	blood
35	chr7:38911800-38948200	Weak transcription	Aorta	Aorta
36	chr7:38912000-38932800	Weak transcription	Spleen	Spleen
37	chr7:38913800-38925800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr7:38914000-38934200	Weak transcription	Liver	Liver
39	chr7:38914200-38935000	Weak transcription	Dnd41	blood
40	chr7:38916600-38941600	Weak transcription	Placenta Amnion	Placenta Amnion
41	chr7:38916800-38948200	Weak transcription	Sigmoid Colon	Sigmoid Colon
42	chr7:38917600-38934000	Weak transcription	Ovary	ovary
43	chr7:38917800-38925600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
44	chr7:38918800-38929800	Weak transcription	Monocytes-CD14+_RO01746	blood
45	chr7:38918800-38934200	Weak transcription	Primary neutrophils fromperipheralblood	blood
46	chr7:38918800-38948000	Weak transcription	Skeletal Muscle Male	skeletal muscle
47	chr7:38919000-38925400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr7:38919000-38925800	Weak transcription	Primary monocytes fromperipheralblood	blood
49	chr7:38919000-38929800	Weak transcription	Primary B cells from cord blood	blood
50	chr7:38919000-38932800	Weak transcription	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links