Variant report

Variant	rs35925761
Chromosome Location	chr1:161003505-161003506
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:9)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ATF3	chr1:161003447-161003989	HCT-116	colon:	n/a	n/a
2	JUND	chr1:161003500-161004017	HCT-116	colon:	n/a	n/a
3	CEBPB	chr1:161003434-161003970	HCT-116	colon:	n/a	n/a
4	ATF3	chr1:161003492-161003994	HCT-116	colon:	n/a	n/a
5	CBX3	chr1:161003438-161004051	HCT-116	colon:	n/a	n/a
6	CEBPB	chr1:161003433-161004073	HCT-116	colon:	n/a	n/a
7	CEBPB	chr1:161003501-161003863	MCF-7	breast:	n/a	n/a
8	JUN	chr1:161003446-161004042	K562	blood:	n/a	n/a
9	JUND	chr1:161003418-161004004	HCT-116	colon:	n/a	n/a

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:160991059..160993803-chr1:161000657..161003886,3	K562	blood:
2	chr1:160988517..160990791-chr1:161000780..161003550,2	K562	blood:
3	chr1:160999454..161004323-chr1:161006023..161009248,5	MCF-7	breast:
4	chr1:160977491..160981200-chr1:161001493..161003546,3	K562	blood:
5	chr1:160988930..160992089-chr1:161001381..161003949,4	MCF-7	breast:
6	chr1:161001601..161003650-chr1:161013707..161015619,2	MCF-7	breast:
7	chr1:161002324..161003834-chr1:161086887..161088965,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000232879	TF binding region
ENSG00000158793	Chromatin interaction
ENSG00000143256	Chromatin interaction
ENSG00000215845	Chromatin interaction
ENSG00000158773	Chromatin interaction
ENSG00000270149	Chromatin interaction
ENSG00000158769	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs11265544	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11588189	0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2516838	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2774279	0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34339899	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4656974	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4656977	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[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	nsv530077	chr1:160836448-161284904	Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	119 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:160991200-161007800	Weak transcription	HSMMtube	muscle
2	chr1:160991600-161007000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
3	chr1:160991800-161004600	Weak transcription	Primary B cells from cord blood	blood
4	chr1:160991800-161005200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
5	chr1:160991800-161007600	Weak transcription	Thymus	Thymus
6	chr1:160991800-161007800	Weak transcription	Primary hematopoietic stem cells	blood
7	chr1:160992000-161004600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr1:160992000-161007000	Weak transcription	Fetal Intestine Small	intestine
9	chr1:160992200-161008000	Weak transcription	HUVEC	blood vessel
10	chr1:160997200-161008000	Weak transcription	A549	lung
11	chr1:160999600-161004400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr1:161001000-161003800	Enhancers	Adipose Nuclei	Adipose
13	chr1:161001800-161004000	Enhancers	Hela-S3	cervix
14	chr1:161001800-161005800	Enhancers	Primary B cells from peripheral blood	blood
15	chr1:161001800-161006800	Weak transcription	Lung	lung
16	chr1:161001800-161007800	Weak transcription	Monocytes-CD14+_RO01746	blood
17	chr1:161002000-161004000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr1:161002000-161005000	Enhancers	K562	blood
19	chr1:161002000-161007600	Weak transcription	Primary monocytes fromperipheralblood	blood
20	chr1:161002200-161003800	Enhancers	Breast Myoepithelial Primary Cells	Breast
21	chr1:161002200-161003800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr1:161002200-161003800	Enhancers	Primary T helper cells PMA-I stimulated	--
23	chr1:161002200-161004000	Enhancers	NHEK	skin
24	chr1:161002200-161007600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr1:161002400-161004000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr1:161002400-161004000	Enhancers	HMEC	breast
27	chr1:161002400-161004200	Enhancers	Placenta	Placenta
28	chr1:161002600-161007400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr1:161002800-161004800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
30	chr1:161002800-161007200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr1:161003000-161007000	Weak transcription	Primary neutrophils fromperipheralblood	blood
32	chr1:161003000-161007000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
33	chr1:161003000-161007200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
34	chr1:161003000-161007400	Weak transcription	GM12878-XiMat	blood
35	chr1:161003000-161008200	Weak transcription	Osteobl	bone
36	chr1:161003200-161006800	Weak transcription	HepG2	liver
37	chr1:161003200-161007000	Weak transcription	Liver	Liver
38	chr1:161003200-161007200	Weak transcription	Fetal Heart	heart
39	chr1:161003200-161007400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
40	chr1:161003200-161007600	Weak transcription	HSMM	muscle
41	chr1:161003200-161007800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
42	chr1:161003200-161008800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr1:161003400-161005000	Weak transcription	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links