Variant report

Variant	rs12860899
Chromosome Location	chr13:51817495-51817496
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	chr13:51812537..51814566-chr13:51816955..51818623,2	K562	blood:
2	chr13:51804724..51807237-chr13:51815591..51817634,2	MCF-7	breast:

Extended variants
information (count: 9 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs2277443	1.00[LWK][hapmap]
rs9535625	1.00[LWK][hapmap]
rs9535652	1.00[LWK][hapmap]
rs9535661	1.00[LWK][hapmap]
rs9535663	1.00[LWK][hapmap]
rs9563038	0.91[GIH][hapmap]
rs9563046	1.00[LWK][hapmap]

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	nsv832610	chr13:51636661-51822106	Bivalent/Poised TSS Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv832611	chr13:51766472-51938314	Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:51799800-51818200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr13:51805200-51825600	Weak transcription	Aorta	Aorta
3	chr13:51808000-51821200	Enhancers	Brain Substantia Nigra	brain
4	chr13:51808400-51821400	Enhancers	Fetal Heart	heart
5	chr13:51808600-51820000	Weak transcription	Fetal Brain Female	brain
6	chr13:51809000-51818200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr13:51810000-51818200	Weak transcription	Brain Germinal Matrix	brain
8	chr13:51810200-51818200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr13:51810200-51820200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr13:51810400-51818000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr13:51810400-51820000	Weak transcription	Fetal Brain Male	brain
12	chr13:51810600-51818200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr13:51812600-51820600	Weak transcription	Right Ventricle	heart
14	chr13:51812600-51821000	Weak transcription	Spleen	Spleen
15	chr13:51813200-51822600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr13:51813600-51821200	Enhancers	Brain Cingulate Gyrus	brain
17	chr13:51813800-51818600	Weak transcription	Fetal Muscle Trunk	muscle
18	chr13:51814000-51817600	Enhancers	Brain Inferior Temporal Lobe	brain
19	chr13:51814000-51819000	Enhancers	Colon Smooth Muscle	Colon
20	chr13:51814000-51820600	Enhancers	Breast Myoepithelial Primary Cells	Breast
21	chr13:51814200-51820200	Enhancers	Brain Anterior Caudate	brain
22	chr13:51814400-51817600	Enhancers	iPS-15b Cell Line	embryonic stem cell
23	chr13:51814400-51817800	Enhancers	Fetal Stomach	stomach
24	chr13:51814400-51819000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr13:51814600-51818200	Enhancers	ES-I3 Cell Line	embryonic stem cell
26	chr13:51814800-51817800	Enhancers	HUES6 Cell Line	embryonic stem cell
27	chr13:51815000-51821400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr13:51815400-51818000	Weak transcription	Left Ventricle	heart
29	chr13:51815600-51821000	Weak transcription	Right Atrium	heart
30	chr13:51816000-51818600	Enhancers	Rectal Smooth Muscle	rectum
31	chr13:51816000-51818800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr13:51816200-51819000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr13:51816200-51820600	Enhancers	Cortex derived primary cultured neurospheres	brain
34	chr13:51816200-51836600	Weak transcription	Adipose Nuclei	Adipose
35	chr13:51816400-51817800	Genic enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr13:51816400-51819200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr13:51816400-51820200	Enhancers	H1 Cell Line	embryonic stem cell
38	chr13:51816800-51817600	Enhancers	HUES48 Cell Line	embryonic stem cell
39	chr13:51816800-51818000	Weak transcription	H9 Cell Line	embryonic stem cell
40	chr13:51816800-51820200	Weak transcription	Fetal Lung	lung
41	chr13:51816800-51836000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr13:51817000-51818400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr13:51817000-51821000	Enhancers	Brain Angular Gyrus	brain
44	chr13:51817200-51818000	Weak transcription	Stomach Smooth Muscle	stomach
45	chr13:51817200-51819200	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
46	chr13:51817400-51817600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chr13:51817400-51817600	Active TSS	iPS-20b Cell Line	embryonic stem cell
48	chr13:51817400-51818000	Weak transcription	Brain Hippocampus Middle	brain
49	chr13:51817400-51818200	Enhancers	HUES64 Cell Line	embryonic stem cell
50	chr13:51817400-51821200	Weak transcription	Duodenum Smooth Muscle	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links