Variant report

Variant	rs3007675
Chromosome Location	chr1:152004634-152004635
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:152004043..152013121-chr1:152013584..152022966,19	K562	blood:
2	chr1:152003508..152006016-chr3:64240085..64241940,2	MCF-7	breast:
3	chr1:151958520..151979218-chr1:151992734..152014750,97	MCF-7	breast:
4	chr1:151997592..152000078-chr1:152004564..152007278,3	K562	blood:
5	chr1:151904319..151906408-chr1:152003368..152007237,3	MCF-7	breast:
6	chr1:152003216..152005599-chr1:152046745..152048519,2	MCF-7	breast:
7	chr1:152004094..152009269-chr1:152022985..152027910,7	K562	blood:
8	chr1:151978047..151980074-chr1:152004028..152006807,2	K562	blood:
9	chr1:152003076..152005594-chr1:152022985..152024993,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000163191	Chromatin interaction
ENSG00000197747	Chromatin interaction
ENSG00000229021	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10788811	1.00[AMR][1000 genomes]
rs2338205	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2999521	1.00[AMR][1000 genomes]
rs2999549	1.00[AMR][1000 genomes]
rs2999557	1.00[AMR][1000 genomes]
rs3007683	1.00[AMR][1000 genomes]
rs3007715	1.00[AMR][1000 genomes]
rs3104206	1.00[AMR][1000 genomes]
rs7551161	1.00[AMR][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	nsv1007097	chr1:151832796-152227977	Strong transcription Genic enhancers Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	196 gene(s)	inside rSNPs	diseases
2	nsv1012327	chr1:151835544-152200890	Enhancers Bivalent/Poised TSS Flanking Active TSS Strong transcription Active TSS Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	196 gene(s)	inside rSNPs	diseases
3	nsv535159	chr1:151835544-152200890	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Genic enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	196 gene(s)	inside rSNPs	diseases
4	nsv872441	chr1:151850072-152034430	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	191 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:107 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:151986800-152007400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr1:151997000-152004800	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr1:151997000-152006600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr1:151997000-152007000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr1:152000200-152005000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr1:152001600-152005000	Strong transcription	Primary T cells from cord blood	blood
7	chr1:152001600-152006000	Genic enhancers	Primary neutrophils fromperipheralblood	blood
8	chr1:152001800-152005000	Weak transcription	Right Ventricle	heart
9	chr1:152001800-152007200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr1:152002000-152004800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
11	chr1:152002000-152007400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr1:152002400-152005200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr1:152002600-152004800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr1:152002600-152004800	Weak transcription	Colonic Mucosa	Colon
15	chr1:152002600-152005000	Strong transcription	Primary T cells fromperipheralblood	blood
16	chr1:152002600-152005400	Strong transcription	A549	lung
17	chr1:152002600-152005600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr1:152002600-152005800	Strong transcription	Duodenum Mucosa	Duodenum
19	chr1:152002600-152005800	Strong transcription	Fetal Thymus	thymus
20	chr1:152002600-152006400	Strong transcription	Fetal Muscle Leg	muscle
21	chr1:152002800-152004800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr1:152002800-152005200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr1:152002800-152006200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr1:152002800-152006800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr1:152003000-152005400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr1:152003000-152005400	Strong transcription	Placenta	Placenta
27	chr1:152003000-152006000	Strong transcription	Fetal Intestine Small	intestine
28	chr1:152003000-152006400	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr1:152003200-152004800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
30	chr1:152003200-152004800	Weak transcription	Colon Smooth Muscle	Colon
31	chr1:152003200-152005200	Genic enhancers	Monocytes-CD14+_RO01746	blood
32	chr1:152003200-152005400	Strong transcription	Muscle Satellite Cultured Cells	--
33	chr1:152003200-152005400	Strong transcription	Left Ventricle	heart
34	chr1:152003200-152005600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr1:152003200-152005600	Strong transcription	Adipose Nuclei	Adipose
36	chr1:152003200-152005600	Strong transcription	Thymus	Thymus
37	chr1:152003200-152006000	Strong transcription	HUVEC	blood vessel
38	chr1:152003200-152006200	Strong transcription	Rectal Mucosa Donor 31	rectum
39	chr1:152003200-152006400	Genic enhancers	Primary monocytes fromperipheralblood	blood
40	chr1:152003200-152006400	Strong transcription	HSMMtube	muscle
41	chr1:152003200-152006600	Strong transcription	HUES6 Cell Line	embryonic stem cell
42	chr1:152003400-152004800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr1:152003400-152005200	Strong transcription	Placenta Amnion	Placenta Amnion
44	chr1:152003400-152005400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
45	chr1:152003400-152005800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
46	chr1:152003400-152006000	Strong transcription	Duodenum Smooth Muscle	Duodenum
47	chr1:152003400-152006000	Strong transcription	Osteobl	bone
48	chr1:152003400-152006200	Strong transcription	Sigmoid Colon	Sigmoid Colon
49	chr1:152003400-152006400	Strong transcription	Fetal Intestine Large	intestine
50	chr1:152003400-152006400	Strong transcription	Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links