Variant report

Variant	rs56033321
Chromosome Location	chr4:159077272-159077273
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:159076732..159078631-chr4:159080658..159082639,2	MCF-7	breast:
2	chr4:159075615..159078408-chr4:159081390..159084163,2	MCF-7	breast:
3	chr4:159075926..159078246-chr4:159082036..159083759,2	K562	blood:

Variant related genes	Relation type
ENSG00000164125	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11936729	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11944517	1.00[AMR][1000 genomes]
rs11945640	1.00[AMR][1000 genomes]
rs11946222	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55788430	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56167625	1.00[AMR][1000 genomes]
rs56754638	1.00[AMR][1000 genomes]
rs57754015	1.00[AMR][1000 genomes]
rs58547264	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58624740	1.00[AMR][1000 genomes]
rs59234905	1.00[AMR][1000 genomes]
rs72967842	1.00[AMR][1000 genomes]
rs72971730	1.00[AMR][1000 genomes]
rs73857535	1.00[AMR][1000 genomes]
rs73857540	1.00[AMR][1000 genomes]
rs73857549	1.00[AMR][1000 genomes]
rs73857576	1.00[AMR][1000 genomes]
rs73857581	1.00[AMR][1000 genomes]
rs73857583	1.00[AMR][1000 genomes]
rs73857587	1.00[AMR][1000 genomes]
rs73857590	1.00[AMR][1000 genomes]
rs73857591	1.00[AMR][1000 genomes]
rs73857593	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73857598	1.00[AMR][1000 genomes]
rs7655528	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv993476	chr4:158550643-159202015	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1030124	chr4:158758675-159251140	Bivalent/Poised TSS Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv1021067	chr4:158972282-159175475	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:159042800-159083600	Weak transcription	Fetal Muscle Leg	muscle
2	chr4:159047000-159080200	Weak transcription	Right Ventricle	heart
3	chr4:159051800-159080400	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr4:159052600-159080200	Weak transcription	Left Ventricle	heart
5	chr4:159059000-159077800	Weak transcription	Aorta	Aorta
6	chr4:159062000-159077600	Weak transcription	Rectal Smooth Muscle	rectum
7	chr4:159062600-159077800	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr4:159062600-159083600	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr4:159063400-159078800	Strong transcription	Monocytes-CD14+_RO01746	blood
10	chr4:159066400-159080400	Weak transcription	Brain Hippocampus Middle	brain
11	chr4:159068400-159078200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr4:159068600-159080400	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr4:159068600-159080400	Weak transcription	Brain Cingulate Gyrus	brain
14	chr4:159068600-159082000	Weak transcription	Brain Substantia Nigra	brain
15	chr4:159068800-159079400	Weak transcription	Brain Angular Gyrus	brain
16	chr4:159068800-159081000	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr4:159070600-159079800	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr4:159071400-159080400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr4:159072000-159080000	Weak transcription	Stomach Smooth Muscle	stomach
20	chr4:159072000-159083800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr4:159073400-159077800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr4:159073400-159080000	Weak transcription	Fetal Stomach	stomach
23	chr4:159073400-159082600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr4:159073400-159083000	Weak transcription	Pancreas	Pancrea
25	chr4:159076400-159078200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr4:159076400-159079600	Enhancers	Fetal Intestine Small	intestine
27	chr4:159076600-159078000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
28	chr4:159076600-159078000	Enhancers	NH-A	brain
29	chr4:159076600-159080600	Enhancers	Fetal Intestine Large	intestine
30	chr4:159076600-159085200	Enhancers	Colon Smooth Muscle	Colon
31	chr4:159076800-159077600	Enhancers	Stomach Mucosa	stomach
32	chr4:159076800-159079400	Weak transcription	Primary monocytes fromperipheralblood	blood
33	chr4:159076800-159080400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr4:159076800-159089800	Weak transcription	Fetal Muscle Trunk	muscle
35	chr4:159077000-159077400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr4:159077000-159077400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr4:159077000-159077400	Weak transcription	HMEC	breast
38	chr4:159077000-159077600	Weak transcription	HepG2	liver
39	chr4:159077000-159077600	Weak transcription	HSMM	muscle
40	chr4:159077000-159077800	Weak transcription	Adipose Nuclei	Adipose
41	chr4:159077000-159077800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
42	chr4:159077000-159077800	Weak transcription	Ovary	ovary
43	chr4:159077000-159078600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr4:159077000-159079200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr4:159077000-159080000	Weak transcription	Osteobl	bone
46	chr4:159077000-159082600	Enhancers	HSMMtube	muscle
47	chr4:159077000-159083000	Enhancers	Breast Myoepithelial Primary Cells	Breast
48	chr4:159077200-159077400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
49	chr4:159077200-159077400	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
50	chr4:159077200-159077600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links