Variant report

Variant	rs35225290
Chromosome Location	chr3:141130835-141130836
allele	C/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:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:141130048..141133212-chr3:141148834..141151163,3	MCF-7	breast:
2	chr3:141124961..141126673-chr3:141128452..141131076,2	K562	blood:
3	chr3:141119395..141121846-chr3:141130487..141133374,3	K562	blood:
4	chr3:141130018..141132073-chr3:141134361..141136631,2	K562	blood:
5	chr3:141130353..141132401-chr3:141139502..141141974,2	K562	blood:
6	chr3:141085385..141089817-chr3:141128434..141134875,8	K562	blood:
7	chr3:141085740..141088451-chr3:141128434..141131392,3	K562	blood:
8	chr3:141085603..141088403-chr3:141129838..141131985,2	MCF-7	breast:
9	chr3:141119734..141124291-chr3:141125562..141133374,8	K562	blood:
10	chr3:141029007..141031829-chr3:141128539..141131843,4	MCF-7	breast:
11	chr3:141117835..141119368-chr3:141128944..141131401,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000177311	Chromatin interaction
ENSG00000249417	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs13066993	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs13067032	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13068065	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13069734	0.97[EUR][1000 genomes]
rs13091182	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13099193	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2011092	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6767786	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6767899	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6785073	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6789653	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6807935	0.89[EUR][1000 genomes]
rs9821337	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9822195	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9822327	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9858603	0.87[AMR][1000 genomes];0.96[EUR][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	nsv829744	chr3:141016749-141189168	Genic enhancers Strong transcription Transcr. at gene 5' and 3' Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:141122000-141131800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr3:141123800-141131400	Weak transcription	Thymus	Thymus
3	chr3:141124000-141131000	Weak transcription	Primary B cells from cord blood	blood
4	chr3:141125000-141131000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
5	chr3:141125400-141131200	Weak transcription	Brain Germinal Matrix	brain
6	chr3:141126600-141131800	Enhancers	Primary neutrophils fromperipheralblood	blood
7	chr3:141126800-141132000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr3:141126800-141138000	Genic enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr3:141127000-141131000	Weak transcription	Fetal Brain Male	brain
10	chr3:141127600-141131000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr3:141127600-141131000	Enhancers	Stomach Mucosa	stomach
12	chr3:141127600-141132200	Genic enhancers	Fetal Intestine Small	intestine
13	chr3:141127800-141131400	Enhancers	Placenta	Placenta
14	chr3:141128200-141131000	Enhancers	Liver	Liver
15	chr3:141128200-141131000	Enhancers	Brain Angular Gyrus	brain
16	chr3:141128200-141131000	Enhancers	Brain Hippocampus Middle	brain
17	chr3:141128400-141132000	Enhancers	Primary B cells from peripheral blood	blood
18	chr3:141128600-141131000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr3:141128600-141131000	Enhancers	Muscle Satellite Cultured Cells	--
20	chr3:141128600-141131000	Enhancers	HMEC	breast
21	chr3:141128600-141131600	Enhancers	HUES64 Cell Line	embryonic stem cell
22	chr3:141128600-141131800	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
23	chr3:141128600-141132800	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
24	chr3:141128800-141131000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
25	chr3:141128800-141131800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
26	chr3:141129000-141131000	Enhancers	Fetal Kidney	kidney
27	chr3:141129000-141131000	Enhancers	Fetal Stomach	stomach
28	chr3:141129000-141131000	Enhancers	HSMMtube	muscle
29	chr3:141129000-141131400	Weak transcription	Fetal Muscle Trunk	muscle
30	chr3:141129200-141131000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr3:141129200-141131000	Enhancers	NHLF	lung
32	chr3:141129200-141131200	Enhancers	ES-I3 Cell Line	embryonic stem cell
33	chr3:141129400-141131000	Enhancers	Primary T helper cells fromperipheralblood	blood
34	chr3:141129400-141131000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr3:141129400-141131000	Enhancers	Skeletal Muscle Female	skeletal muscle
36	chr3:141129400-141131200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr3:141129400-141131400	Weak transcription	Ovary	ovary
38	chr3:141129400-141132000	Enhancers	Primary monocytes fromperipheralblood	blood
39	chr3:141129400-141132200	Enhancers	Placenta Amnion	Placenta Amnion
40	chr3:141129600-141131200	Enhancers	Fetal Brain Female	brain
41	chr3:141129600-141131600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr3:141129600-141131600	Weak transcription	Esophagus	oesophagus
43	chr3:141129600-141132000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr3:141129600-141132000	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
45	chr3:141129600-141132000	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
46	chr3:141129600-141132200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chr3:141129600-141133800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
48	chr3:141130000-141131200	Enhancers	Cortex derived primary cultured neurospheres	brain
49	chr3:141130000-141131200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr3:141130200-141131000	Flanking Active TSS	Colon Smooth Muscle	Colon

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