Variant report

Variant	rs12333330
Chromosome Location	chr6:25360314-25360315
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs60982159	0.84[AFR][1000 genomes]
rs6905765	0.84[AFR][1000 genomes]
rs73383424	0.84[AFR][1000 genomes]
rs7750545	0.82[AFR][1000 genomes]
rs9461143	0.82[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv883485	chr6:25259137-25437986	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv883486	chr6:25260434-25422369	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv883487	chr6:25280119-25508868	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv830612	chr6:25342408-25509758	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv601168	chr6:25346334-25393306	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25352200-25363000	Weak transcription	Primary monocytes fromperipheralblood	blood
2	chr6:25358200-25361000	Enhancers	Rectal Mucosa Donor 31	rectum
3	chr6:25358800-25361400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr6:25358800-25362600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr6:25359000-25360400	Enhancers	Brain Germinal Matrix	brain
6	chr6:25359000-25360800	Enhancers	HUES48 Cell Line	embryonic stem cell
7	chr6:25359200-25360400	Enhancers	Stomach Mucosa	stomach
8	chr6:25359200-25360600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr6:25359200-25360600	Enhancers	iPS-20b Cell Line	embryonic stem cell
10	chr6:25359200-25360800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
11	chr6:25359200-25361000	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr6:25359200-25361000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr6:25359200-25361000	Enhancers	Ovary	ovary
14	chr6:25359200-25361000	Enhancers	Small Intestine	intestine
15	chr6:25359200-25361000	Enhancers	A549	lung
16	chr6:25359200-25361200	Enhancers	iPS-15b Cell Line	embryonic stem cell
17	chr6:25359200-25361200	Enhancers	Duodenum Mucosa	Duodenum
18	chr6:25359200-25361200	Enhancers	HSMM	muscle
19	chr6:25359200-25361400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr6:25359200-25362800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr6:25359200-25363600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr6:25359400-25360400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr6:25359400-25360400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr6:25359400-25360400	Enhancers	iPS-18 Cell Line	embryonic stem cell
25	chr6:25359400-25360400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr6:25359400-25360400	Enhancers	Placenta	Placenta
27	chr6:25359400-25360400	Enhancers	Gastric	stomach
28	chr6:25359400-25360400	Enhancers	Pancreas	Pancrea
29	chr6:25359400-25360400	Enhancers	Skeletal Muscle Male	skeletal muscle
30	chr6:25359400-25360400	Flanking Active TSS	HSMMtube	muscle
31	chr6:25359400-25360400	Flanking Active TSS	Osteobl	bone
32	chr6:25359400-25361000	Enhancers	H1 Cell Line	embryonic stem cell
33	chr6:25359400-25361000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr6:25359400-25361000	Enhancers	Fetal Intestine Small	intestine
35	chr6:25359400-25361000	Enhancers	Fetal Muscle Leg	muscle
36	chr6:25359400-25361000	Enhancers	Fetal Thymus	thymus
37	chr6:25359400-25361200	Enhancers	ES-I3 Cell Line	embryonic stem cell
38	chr6:25359400-25361200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr6:25359400-25361200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
40	chr6:25359600-25360400	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
41	chr6:25359600-25360400	Enhancers	Brain Hippocampus Middle	brain
42	chr6:25359600-25360600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
43	chr6:25359600-25360800	Enhancers	Duodenum Smooth Muscle	Duodenum
44	chr6:25359600-25361000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
45	chr6:25359600-25361000	Enhancers	Brain Substantia Nigra	brain
46	chr6:25359600-25361200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
47	chr6:25359600-25361400	Enhancers	Brain Anterior Caudate	brain
48	chr6:25359600-25366000	Weak transcription	Primary T helper cells PMA-I stimulated	--
49	chr6:25359800-25360400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
50	chr6:25359800-25360600	Bivalent Enhancer	Fetal Brain Male	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links