Variant report

Variant	rs7635305
Chromosome Location	chr3:160075944-160075945
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr3:160075944-160075961	MCF-7	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:160075151..160078117-chr3:160116930..160118482,2	MCF-7	breast:

Variant related genes	Relation type
IFT80	TF binding region
ENSG00000068885	Chromatin interaction
ENSG00000113810	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs11929258	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12106837	1.00[EUR][1000 genomes]
rs12107576	1.00[EUR][1000 genomes]
rs2275150	1.00[EUR][1000 genomes]
rs2278848	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3773370	1.00[EUR][1000 genomes]
rs56804721	1.00[EUR][1000 genomes]
rs58993492	1.00[EUR][1000 genomes]
rs59308952	1.00[EUR][1000 genomes]
rs6441309	1.00[EUR][1000 genomes]
rs6441310	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6764227	1.00[EUR][1000 genomes]
rs6773833	1.00[EUR][1000 genomes]
rs6773856	1.00[EUR][1000 genomes]
rs6793718	1.00[EUR][1000 genomes]
rs6802789	1.00[EUR][1000 genomes]
rs6808628	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532666	chr3:159777847-160703202	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases
2	nsv1000453	chr3:159853305-160366357	Active TSS Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	259 gene(s)	inside rSNPs	diseases
3	nsv536779	chr3:159853305-160366357	Strong transcription Enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	259 gene(s)	inside rSNPs	diseases
4	esv1800136	chr3:159950498-160278160	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	213 gene(s)	inside rSNPs	diseases
5	esv1801767	chr3:159950498-160279411	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	213 gene(s)	inside rSNPs	diseases
6	esv1801474	chr3:160012843-160153305	Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	206 gene(s)	inside rSNPs	diseases
7	nsv1008519	chr3:160038710-160292589	Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Enhancers Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	255 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160034800-160082800	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr3:160049400-160090600	Weak transcription	NH-A	brain
3	chr3:160054400-160091600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr3:160055200-160103400	Weak transcription	Rectal Smooth Muscle	rectum
5	chr3:160055800-160087800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr3:160056200-160091000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr3:160056400-160082800	Weak transcription	Fetal Muscle Leg	muscle
8	chr3:160056400-160098000	Weak transcription	Aorta	Aorta
9	chr3:160056600-160082400	Weak transcription	Fetal Lung	lung
10	chr3:160056600-160082800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr3:160056600-160083200	Weak transcription	Fetal Intestine Small	intestine
12	chr3:160056600-160091600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr3:160058400-160088800	Weak transcription	Osteobl	bone
14	chr3:160058800-160083200	Weak transcription	GM12878-XiMat	blood
15	chr3:160059400-160077200	Weak transcription	Lung	lung
16	chr3:160061400-160109600	Weak transcription	Fetal Heart	heart
17	chr3:160063400-160094000	Weak transcription	Fetal Brain Female	brain
18	chr3:160064400-160077800	Weak transcription	Spleen	Spleen
19	chr3:160065000-160082800	Weak transcription	NHDF-Ad	bronchial
20	chr3:160065000-160091600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr3:160066200-160086000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr3:160066400-160099200	Weak transcription	NHEK	skin
23	chr3:160066800-160083200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr3:160067800-160097800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr3:160068600-160086000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
26	chr3:160068600-160096000	Weak transcription	Gastric	stomach
27	chr3:160068800-160094000	Weak transcription	Adipose Nuclei	Adipose
28	chr3:160068800-160094000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr3:160069000-160115200	Weak transcription	Brain Cingulate Gyrus	brain
30	chr3:160069800-160087600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
31	chr3:160070200-160077400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr3:160070200-160086200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr3:160070400-160092400	Weak transcription	HMEC	breast
34	chr3:160070600-160078000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr3:160070600-160085800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
36	chr3:160071000-160091000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
37	chr3:160071400-160083200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
38	chr3:160071400-160098200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr3:160071400-160102000	Weak transcription	Small Intestine	intestine
40	chr3:160071600-160099400	Weak transcription	Placenta	Placenta
41	chr3:160071800-160091800	Weak transcription	Brain Inferior Temporal Lobe	brain
42	chr3:160071800-160092000	Weak transcription	Monocytes-CD14+_RO01746	blood
43	chr3:160072000-160077200	Weak transcription	H1 Cell Line	embryonic stem cell
44	chr3:160072000-160096400	Weak transcription	Skeletal Muscle Female	skeletal muscle
45	chr3:160072600-160077400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
46	chr3:160072600-160086000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
47	chr3:160072600-160096200	Weak transcription	HepG2	liver
48	chr3:160072800-160087400	Weak transcription	Brain Substantia Nigra	brain
49	chr3:160072800-160091200	Weak transcription	Stomach Smooth Muscle	stomach
50	chr3:160073000-160091600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links