Variant report

Variant	rs73869578
Chromosome Location	chr3:141025486-141025487
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:141023419..141025607-chr3:141171594..141173582,2	K562	blood:
2	chr3:141010734..141013328-chr3:141022758..141025785,4	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TFDP2-11	chr3:141025328-141030534	NONHSAT092424

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11914783	1.00[EUR][1000 genomes]
rs11914819	1.00[EUR][1000 genomes]
rs11918339	1.00[EUR][1000 genomes]
rs11922466	1.00[EUR][1000 genomes]
rs58990624	1.00[EUR][1000 genomes]
rs59373674	1.00[EUR][1000 genomes]
rs59719153	1.00[EUR][1000 genomes]
rs60338048	1.00[EUR][1000 genomes]
rs60931350	1.00[EUR][1000 genomes]
rs6809141	1.00[EUR][1000 genomes]
rs73869545	1.00[EUR][1000 genomes]
rs73869611	1.00[EUR][1000 genomes]
rs73869616	1.00[EUR][1000 genomes]
rs73869632	1.00[EUR][1000 genomes]
rs73869637	1.00[EUR][1000 genomes]
rs73869640	1.00[EUR][1000 genomes]
rs73869643	1.00[EUR][1000 genomes]
rs73869652	1.00[EUR][1000 genomes]
rs73869655	1.00[EUR][1000 genomes]
rs7619732	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7623527	1.00[EUR][1000 genomes]
rs7632283	1.00[EUR][1000 genomes]
rs7632369	1.00[EUR][1000 genomes]
rs7635077	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877551	chr3:140970556-141029860	Flanking Active TSS Genic enhancers Enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
2	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:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:141012000-141027200	Weak transcription	Pancreas	Pancrea
2	chr3:141012000-141027400	Weak transcription	Gastric	stomach
3	chr3:141012000-141029800	Weak transcription	Right Ventricle	heart
4	chr3:141012200-141029800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr3:141012200-141029800	Weak transcription	Brain Germinal Matrix	brain
6	chr3:141012200-141029800	Weak transcription	Left Ventricle	heart
7	chr3:141014000-141029800	Weak transcription	Spleen	Spleen
8	chr3:141014000-141030000	Weak transcription	Aorta	Aorta
9	chr3:141014200-141029800	Weak transcription	Right Atrium	heart
10	chr3:141020600-141025600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr3:141021400-141026000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr3:141021800-141026000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr3:141021800-141029800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr3:141021800-141029800	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr3:141022200-141026000	Weak transcription	HMEC	breast
16	chr3:141022600-141029400	Weak transcription	Hela-S3	cervix
17	chr3:141022600-141029800	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr3:141022800-141027000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr3:141022800-141027200	Weak transcription	Brain Anterior Caudate	brain
20	chr3:141022800-141027200	Weak transcription	Placenta	Placenta
21	chr3:141022800-141027400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr3:141022800-141029600	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr3:141022800-141030000	Weak transcription	HSMMtube	muscle
24	chr3:141023000-141025600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr3:141023000-141025600	Weak transcription	K562	blood
26	chr3:141023000-141025800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr3:141023000-141027400	Weak transcription	Skeletal Muscle Female	skeletal muscle
28	chr3:141023000-141027400	Weak transcription	NHEK	skin
29	chr3:141023000-141029400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr3:141023000-141029600	Weak transcription	Adipose Nuclei	Adipose
31	chr3:141023000-141029800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr3:141023000-141029800	Weak transcription	Brain Hippocampus Middle	brain
33	chr3:141023000-141029800	Weak transcription	Brain Substantia Nigra	brain
34	chr3:141023000-141029800	Weak transcription	Skeletal Muscle Male	skeletal muscle
35	chr3:141023000-141030000	Weak transcription	Esophagus	oesophagus
36	chr3:141023200-141027200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr3:141023200-141029800	Weak transcription	Primary neutrophils fromperipheralblood	blood
38	chr3:141023200-141029800	Weak transcription	Monocytes-CD14+_RO01746	blood
39	chr3:141023200-141029800	Weak transcription	Osteobl	bone
40	chr3:141023400-141025800	Weak transcription	GM12878-XiMat	blood
41	chr3:141023400-141029800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr3:141023600-141029600	Weak transcription	Fetal Heart	heart
43	chr3:141024000-141029600	Enhancers	Primary T helper cells fromperipheralblood	blood
44	chr3:141024200-141025600	Enhancers	Primary T cells fromperipheralblood	blood
45	chr3:141024200-141025800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr3:141024200-141025800	Enhancers	NHDF-Ad	bronchial
47	chr3:141024200-141026000	Enhancers	NHLF	lung
48	chr3:141024400-141026000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
49	chr3:141024400-141026200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
50	chr3:141024400-141027600	Enhancers	Fetal Thymus	thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links