Variant report

Variant	rs72696029
Chromosome Location	chr1:165568832-165568833
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:165567791..165570618-chr1:165797003..165798586,2	K562	blood:
2	chr1:165568647..165571505-chr1:165795399..165798198,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MGST3-1	chr1:165567006-165569013	NONHSAT007321

Variant related genes	Relation type
ENSG00000143183	Chromatin interaction
ENSG00000143179	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11801044	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11801981	1.00[ASN][1000 genomes]
rs11802672	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11803276	1.00[ASN][1000 genomes]
rs11806754	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16847487	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16847544	1.00[ASN][1000 genomes]
rs57256442	0.89[ASN][1000 genomes]
rs58045866	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59033716	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61557603	0.89[ASN][1000 genomes]
rs61804068	0.89[ASN][1000 genomes]
rs61804069	0.89[ASN][1000 genomes]
rs6666914	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6682771	1.00[ASN][1000 genomes]
rs6695758	1.00[ASN][1000 genomes]
rs72696026	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72696027	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72696028	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7550682	0.89[ASN][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	nsv429902	chr1:165531342-165574342	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:165568000-165572800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr1:165568000-165574800	Weak transcription	Right Atrium	heart
3	chr1:165568200-165569000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr1:165568200-165569000	Enhancers	Osteobl	bone
5	chr1:165568200-165569200	Enhancers	Liver	Liver
6	chr1:165568200-165569200	Enhancers	NHDF-Ad	bronchial
7	chr1:165568200-165569800	Weak transcription	Primary monocytes fromperipheralblood	blood
8	chr1:165568200-165569800	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr1:165568200-165569800	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr1:165568200-165570000	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr1:165568200-165570200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr1:165568200-165570200	Weak transcription	Placenta	Placenta
13	chr1:165568200-165570400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr1:165568200-165570600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
15	chr1:165568200-165570600	Weak transcription	Primary T helper cells PMA-I stimulated	--
16	chr1:165568200-165570600	Weak transcription	Brain Hippocampus Middle	brain
17	chr1:165568200-165570600	Weak transcription	Stomach Mucosa	stomach
18	chr1:165568200-165570800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr1:165568200-165570800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr1:165568200-165570800	Weak transcription	Primary B cells from peripheral blood	blood
21	chr1:165568200-165570800	Weak transcription	Primary T cells fromperipheralblood	blood
22	chr1:165568200-165570800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
23	chr1:165568200-165570800	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr1:165568200-165570800	Weak transcription	Brain Substantia Nigra	brain
25	chr1:165568200-165570800	Weak transcription	Colon Smooth Muscle	Colon
26	chr1:165568200-165570800	Weak transcription	Fetal Heart	heart
27	chr1:165568200-165570800	Weak transcription	Fetal Intestine Small	intestine
28	chr1:165568200-165571000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr1:165568200-165571000	Enhancers	Cortex derived primary cultured neurospheres	brain
30	chr1:165568200-165571000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr1:165568200-165571000	Enhancers	HepG2	liver
32	chr1:165568200-165579600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr1:165568400-165570000	Weak transcription	K562	blood
34	chr1:165568400-165570800	Weak transcription	Adipose Nuclei	Adipose
35	chr1:165568400-165570800	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr1:165568400-165570800	Weak transcription	A549	lung
37	chr1:165568400-165570800	Weak transcription	Hela-S3	cervix
38	chr1:165568600-165569800	Weak transcription	Duodenum Mucosa	Duodenum
39	chr1:165568600-165570000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr1:165568600-165570800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
41	chr1:165568600-165570800	Weak transcription	Brain Anterior Caudate	brain
42	chr1:165568600-165570800	Weak transcription	GM12878-XiMat	blood
43	chr1:165568600-165571000	Weak transcription	HUES64 Cell Line	embryonic stem cell
44	chr1:165568600-165571000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
45	chr1:165568600-165571000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr1:165568800-165570800	Weak transcription	HUES48 Cell Line	embryonic stem cell
47	chr1:165568800-165570800	Weak transcription	Pancreatic Islets	Pancreatic Islet

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links