Variant report

Variant	rs17878685
Chromosome Location	chr5:79376567-79376568
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 6 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs17878367	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17878992	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17882167	1.00[AMR][1000 genomes]
rs60093544	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73770688	1.00[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432748	chr5:79300434-79577760	Enhancers Genic enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:79351600-79379200	Weak transcription	Pancreas	Pancrea
2	chr5:79352400-79378200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr5:79354600-79378400	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr5:79359600-79378200	Weak transcription	Rectal Smooth Muscle	rectum
5	chr5:79360000-79378200	Weak transcription	Brain Angular Gyrus	brain
6	chr5:79361400-79378400	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr5:79361600-79378400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr5:79361800-79378400	Strong transcription	Primary T cells from cord blood	blood
9	chr5:79362600-79377800	Weak transcription	Brain Germinal Matrix	brain
10	chr5:79362600-79378600	Weak transcription	Stomach Smooth Muscle	stomach
11	chr5:79363000-79378800	Weak transcription	Thymus	Thymus
12	chr5:79364400-79378200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr5:79365800-79378200	Weak transcription	Fetal Stomach	stomach
14	chr5:79366000-79379000	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr5:79366000-79388000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr5:79366200-79378200	Weak transcription	Adipose Nuclei	Adipose
17	chr5:79366200-79378400	Weak transcription	Fetal Intestine Small	intestine
18	chr5:79366200-79379000	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr5:79366200-79385000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr5:79366200-79392400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr5:79366400-79378400	Weak transcription	Liver	Liver
22	chr5:79366400-79378600	Weak transcription	Placenta	Placenta
23	chr5:79366400-79379200	Weak transcription	Spleen	Spleen
24	chr5:79366600-79378200	Weak transcription	Fetal Thymus	thymus
25	chr5:79366600-79378400	Weak transcription	Fetal Kidney	kidney
26	chr5:79366600-79379000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr5:79366600-79379200	Weak transcription	Lung	lung
28	chr5:79366800-79377600	Weak transcription	Fetal Brain Male	brain
29	chr5:79366800-79377800	Weak transcription	Fetal Brain Female	brain
30	chr5:79366800-79379000	Weak transcription	Primary B cells from cord blood	blood
31	chr5:79369000-79378800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
32	chr5:79369200-79378600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
33	chr5:79369600-79378600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
34	chr5:79370200-79377600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr5:79371000-79378200	Strong transcription	Primary monocytes fromperipheralblood	blood
36	chr5:79371000-79378400	Strong transcription	Primary neutrophils fromperipheralblood	blood
37	chr5:79372800-79378200	Weak transcription	Esophagus	oesophagus
38	chr5:79372800-79378200	Weak transcription	Ovary	ovary
39	chr5:79373000-79378400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
40	chr5:79373200-79378600	Weak transcription	HSMMtube	muscle
41	chr5:79373200-79378800	Weak transcription	Left Ventricle	heart
42	chr5:79373400-79378600	Weak transcription	Right Atrium	heart
43	chr5:79373800-79378200	Weak transcription	Fetal Heart	heart
44	chr5:79373800-79378800	Weak transcription	Right Ventricle	heart
45	chr5:79374400-79378200	Strong transcription	Primary T helper cells PMA-I stimulated	--
46	chr5:79374800-79381800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
47	chr5:79375000-79379200	Weak transcription	Gastric	stomach
48	chr5:79375600-79378400	Weak transcription	Duodenum Smooth Muscle	Duodenum
49	chr5:79375600-79378400	Weak transcription	Monocytes-CD14+_RO01746	blood
50	chr5:79375600-79378600	Weak transcription	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links