Variant report

Variant	rs58404594
Chromosome Location	chr1:78353067-78353068
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FUBP1-1	chr1:78352994-78353374	ENSG00000235927.2

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs56830324	0.80[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs57314531	0.80[AFR][1000 genomes]
rs61145372	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs71244405	0.89[AFR][1000 genomes]
rs72685316	0.82[AMR][1000 genomes]
rs74092324	0.94[AFR][1000 genomes]
rs74092328	0.86[AFR][1000 genomes]
rs9663066	0.90[AFR][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	esv1794082	chr1:78102426-78492221	Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	108 gene(s)	inside rSNPs	diseases
2	esv3434340	chr1:78153780-78607103	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
3	nsv1006600	chr1:78222312-78384009	Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
4	nsv535011	chr1:78222312-78384009	Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:78282800-78353400	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr1:78299600-78353800	Weak transcription	Brain Substantia Nigra	brain
3	chr1:78301400-78353200	Weak transcription	HSMMtube	muscle
4	chr1:78313000-78353200	Weak transcription	HUVEC	blood vessel
5	chr1:78324600-78353800	Weak transcription	Esophagus	oesophagus
6	chr1:78327200-78353600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
7	chr1:78327400-78353800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr1:78333400-78353800	Weak transcription	Lung	lung
9	chr1:78333600-78354000	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr1:78333800-78353800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr1:78334400-78353200	Weak transcription	Fetal Lung	lung
12	chr1:78334400-78353600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr1:78334400-78353600	Weak transcription	Adipose Nuclei	Adipose
14	chr1:78334400-78353800	Weak transcription	Brain Hippocampus Middle	brain
15	chr1:78334400-78353800	Weak transcription	Fetal Kidney	kidney
16	chr1:78334600-78353200	Weak transcription	HSMM	muscle
17	chr1:78334600-78353200	Weak transcription	Osteobl	bone
18	chr1:78334600-78353600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr1:78334600-78353600	Weak transcription	Fetal Brain Female	brain
20	chr1:78334600-78353800	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr1:78334600-78353800	Weak transcription	Placenta	Placenta
22	chr1:78334600-78353800	Weak transcription	Rectal Mucosa Donor 31	rectum
23	chr1:78337000-78353600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr1:78338600-78353400	Weak transcription	Fetal Intestine Small	intestine
25	chr1:78340800-78353800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr1:78341000-78353200	Weak transcription	NHDF-Ad	bronchial
27	chr1:78341000-78353600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr1:78341000-78353800	Weak transcription	Primary T helper cells PMA-I stimulated	--
29	chr1:78341200-78353600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr1:78341200-78353800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr1:78341200-78353800	Weak transcription	Fetal Intestine Large	intestine
32	chr1:78341200-78353800	Weak transcription	Monocytes-CD14+_RO01746	blood
33	chr1:78341400-78353400	Weak transcription	HUES64 Cell Line	embryonic stem cell
34	chr1:78341400-78353400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr1:78341400-78353600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr1:78341400-78353600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr1:78341400-78353800	Weak transcription	Primary hematopoietic stem cells	blood
38	chr1:78342000-78353200	Weak transcription	Fetal Stomach	stomach
39	chr1:78343400-78353200	Weak transcription	Muscle Satellite Cultured Cells	--
40	chr1:78346200-78354000	Weak transcription	Spleen	Spleen
41	chr1:78346800-78353800	Weak transcription	Primary T cells from cord blood	blood
42	chr1:78349200-78353600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
43	chr1:78350600-78353800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr1:78351200-78353200	Weak transcription	NH-A	brain
45	chr1:78351400-78353200	Weak transcription	NHLF	lung
46	chr1:78352200-78353200	Enhancers	Fetal Heart	heart
47	chr1:78352400-78353200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
48	chr1:78352400-78353200	Enhancers	Aorta	Aorta
49	chr1:78352400-78353800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr1:78352400-78359800	Active TSS	Right Ventricle	heart

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