Variant report

Variant	rs61561960
Chromosome Location	chr12:29304834-29304835
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	chr12:29300184..29302890-chr12:29303841..29305698,2	K562	blood:

Variant related genes	Relation type
ENSG00000257258	Chromatin interaction
ENSG00000064763	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs1021574	0.82[AFR][1000 genomes]
rs10771495	0.82[AFR][1000 genomes]
rs1496215	0.85[AFR][1000 genomes]
rs4931159	0.82[AFR][1000 genomes]
rs57127014	0.83[AFR][1000 genomes]
rs6487780	0.85[AFR][1000 genomes]
rs74076760	0.97[AFR][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	nsv532233	chr12:29009388-29496179	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv995123	chr12:29095272-29571558	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
3	nsv1053641	chr12:29268813-29854413	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:29302600-29306800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr12:29303000-29305200	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr12:29303000-29305600	Weak transcription	Brain Substantia Nigra	brain
4	chr12:29303200-29305800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr12:29303200-29305800	Weak transcription	Right Atrium	heart
6	chr12:29303200-29306200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr12:29303200-29306200	Weak transcription	Thymus	Thymus
8	chr12:29303200-29307600	Weak transcription	Placenta	Placenta
9	chr12:29303200-29308200	Weak transcription	Left Ventricle	heart
10	chr12:29303200-29309800	Weak transcription	NHDF-Ad	bronchial
11	chr12:29303400-29305200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr12:29303400-29305200	Weak transcription	Adipose Nuclei	Adipose
13	chr12:29303400-29305400	Weak transcription	Brain Hippocampus Middle	brain
14	chr12:29303400-29305400	Weak transcription	Colon Smooth Muscle	Colon
15	chr12:29303400-29305400	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr12:29303400-29305800	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr12:29303400-29305800	Weak transcription	Fetal Muscle Leg	muscle
18	chr12:29303400-29305800	Weak transcription	Rectal Smooth Muscle	rectum
19	chr12:29303400-29305800	Weak transcription	Stomach Smooth Muscle	stomach
20	chr12:29303400-29306200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr12:29303400-29306400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr12:29303400-29306800	Enhancers	Small Intestine	intestine
23	chr12:29303400-29307000	Enhancers	Fetal Intestine Large	intestine
24	chr12:29303400-29308000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr12:29303400-29308200	Weak transcription	Right Ventricle	heart
26	chr12:29303400-29309000	Enhancers	Primary monocytes fromperipheralblood	blood
27	chr12:29303400-29309800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr12:29303400-29311400	Weak transcription	H9 Cell Line	embryonic stem cell
29	chr12:29303400-29312200	Weak transcription	Spleen	Spleen
30	chr12:29303400-29316600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr12:29303400-29317000	Weak transcription	Colonic Mucosa	Colon
32	chr12:29303400-29317800	Weak transcription	Fetal Kidney	kidney
33	chr12:29303600-29305200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
34	chr12:29303600-29305400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
35	chr12:29303600-29305400	Weak transcription	Brain Angular Gyrus	brain
36	chr12:29303600-29305400	Enhancers	Monocytes-CD14+_RO01746	blood
37	chr12:29303600-29305800	Weak transcription	Brain Germinal Matrix	brain
38	chr12:29303600-29308000	Weak transcription	NH-A	brain
39	chr12:29303600-29308800	Enhancers	Dnd41	blood
40	chr12:29303600-29313400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr12:29303800-29305600	Weak transcription	Fetal Brain Female	brain
42	chr12:29303800-29305800	Weak transcription	H1 Cell Line	embryonic stem cell
43	chr12:29303800-29310200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr12:29304000-29305000	Weak transcription	Brain Anterior Caudate	brain
45	chr12:29304000-29305400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
46	chr12:29304000-29305400	Enhancers	Primary neutrophils fromperipheralblood	blood
47	chr12:29304000-29312600	Weak transcription	Primary T helper cells PMA-I stimulated	--
48	chr12:29304200-29305200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr12:29304200-29305400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
50	chr12:29304200-29305400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links