Variant report

Variant	rs3008619
Chromosome Location	chr1:222799364-222799365
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:222792534..222794480-chr1:222797586..222800158,2	MCF-7	breast:
2	chr1:222798717..222801215-chr1:222815665..222817228,2	K562	blood:
3	chr1:222798057..222800668-chr1:222815376..222816886,2	MCF-7	breast:

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs2936028	1.00[AFR][1000 genomes]
rs2936029	1.00[AFR][1000 genomes]
rs2936042	1.00[AFR][1000 genomes]
rs2936043	1.00[AFR][1000 genomes]
rs2936053	1.00[AFR][1000 genomes]
rs3002127	1.00[AFR][1000 genomes]
rs3002135	1.00[AFR][1000 genomes]
rs3002153	1.00[AFR][1000 genomes]
rs3008636	1.00[AFR][1000 genomes]
rs3008643	1.00[AFR][1000 genomes]
rs3008646	1.00[AFR][1000 genomes]
rs3008648	0.87[AFR][1000 genomes]
rs3008649	1.00[AFR][1000 genomes]
rs3008652	1.00[AFR][1000 genomes]
rs35877231	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999185	chr1:222500725-223278032	Strong transcription Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
2	nsv535304	chr1:222500725-223278032	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
3	nsv873205	chr1:222718718-222923351	Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
4	nsv1012537	chr1:222755091-223512243	Weak transcription Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:222792400-222816600	Weak transcription	Small Intestine	intestine
2	chr1:222792600-222800000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr1:222792600-222801400	Weak transcription	Lung	lung
4	chr1:222792600-222802200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr1:222792600-222802200	Weak transcription	Aorta	Aorta
6	chr1:222792600-222816600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr1:222792600-222817000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr1:222792800-222802000	Weak transcription	Colonic Mucosa	Colon
9	chr1:222793000-222799800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr1:222793000-222800200	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr1:222793000-222802200	Weak transcription	HSMMtube	muscle
12	chr1:222793200-222799400	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr1:222793200-222799400	Weak transcription	Thymus	Thymus
14	chr1:222793200-222800000	Weak transcription	Pancreas	Pancrea
15	chr1:222793200-222800000	Weak transcription	Spleen	Spleen
16	chr1:222793200-222800000	Weak transcription	HMEC	breast
17	chr1:222793200-222800000	Weak transcription	NHLF	lung
18	chr1:222793200-222800200	Weak transcription	NHEK	skin
19	chr1:222793200-222800400	Weak transcription	Muscle Satellite Cultured Cells	--
20	chr1:222793200-222801000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr1:222793200-222801400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr1:222793200-222802200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr1:222793200-222802200	Weak transcription	Fetal Intestine Small	intestine
24	chr1:222793200-222802200	Weak transcription	Right Ventricle	heart
25	chr1:222793200-222802800	Weak transcription	Gastric	stomach
26	chr1:222793200-222816600	Weak transcription	Primary neutrophils fromperipheralblood	blood
27	chr1:222793200-222816600	Weak transcription	Hela-S3	cervix
28	chr1:222793400-222800000	Weak transcription	Brain Substantia Nigra	brain
29	chr1:222793600-222816600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
30	chr1:222794000-222800600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
31	chr1:222794000-222806800	Strong transcription	Primary T cells from cord blood	blood
32	chr1:222794200-222802600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr1:222794200-222805000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
34	chr1:222794400-222800000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
35	chr1:222794600-222800000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr1:222794600-222800000	Strong transcription	Liver	Liver
37	chr1:222794600-222801400	Weak transcription	GM12878-XiMat	blood
38	chr1:222794600-222803600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
39	chr1:222794600-222807200	Strong transcription	Fetal Thymus	thymus
40	chr1:222794600-222809800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr1:222794600-222810400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
42	chr1:222794600-222810400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr1:222794600-222813400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
44	chr1:222794600-222813600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
45	chr1:222794600-222814000	Strong transcription	HUES64 Cell Line	embryonic stem cell
46	chr1:222794600-222815000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr1:222794800-222799400	Strong transcription	NHDF-Ad	bronchial
48	chr1:222794800-222799800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr1:222794800-222803800	Strong transcription	Primary B cells from peripheral blood	blood
50	chr1:222794800-222804000	Strong transcription	Primary monocytes fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links