Variant report

Variant	rs13427714
Chromosome Location	chr2:180133898-180133899
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	TFAP2C	chr2:180132857-180134020	Hela-S3	cervix:	n/a	chr2:180133241-180133256

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:180129872..180132234-chr2:180132866..180134594,2	K562	blood:
2	chr2:180132248..180134762-chr2:180137452..180139078,2	MCF-7	breast:

Variant related genes	Relation type
SESTD1	TF binding region
ENSG00000237477	TF binding region
ENSG00000237477	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10170430	0.81[ASN][1000 genomes]
rs10196577	0.81[ASN][1000 genomes]
rs10197425	0.83[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs10208593	0.84[ASN][1000 genomes]
rs10930856	0.82[EUR][1000 genomes]
rs10930857	0.84[ASN][1000 genomes]
rs12693180	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12989055	0.88[ASN][1000 genomes]
rs13389956	0.88[ASN][1000 genomes]
rs13404037	0.82[EUR][1000 genomes]
rs13420582	0.81[ASN][1000 genomes]
rs35539795	0.80[ASN][1000 genomes]

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	nsv1004693	chr2:179933683-180265288	Weak transcription Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	nsv834472	chr2:180091670-180220448	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:180130000-180135200	Weak transcription	Brain Angular Gyrus	brain
2	chr2:180130000-180137200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr2:180130000-180138000	Weak transcription	Gastric	stomach
4	chr2:180130000-180138200	Weak transcription	Aorta	Aorta
5	chr2:180130000-180141000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr2:180130000-180141200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr2:180130200-180136200	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr2:180130200-180137200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr2:180130200-180137200	Weak transcription	NH-A	brain
10	chr2:180130400-180136000	Weak transcription	Brain Cingulate Gyrus	brain
11	chr2:180130400-180137400	Weak transcription	Fetal Intestine Large	intestine
12	chr2:180130400-180138400	Weak transcription	Colon Smooth Muscle	Colon
13	chr2:180130400-180139200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr2:180130600-180138200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr2:180130800-180135400	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr2:180132200-180134200	Enhancers	Hela-S3	cervix
17	chr2:180132600-180134000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr2:180132600-180134000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr2:180132600-180134000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr2:180132600-180134000	Enhancers	HepG2	liver
21	chr2:180132600-180134000	Enhancers	NHEK	skin
22	chr2:180132600-180134600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr2:180132800-180134000	Enhancers	Muscle Satellite Cultured Cells	--
24	chr2:180132800-180134000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr2:180132800-180134000	Enhancers	HMEC	breast
26	chr2:180132800-180134200	Enhancers	Primary monocytes fromperipheralblood	blood
27	chr2:180133000-180134000	Enhancers	Primary hematopoietic stem cells short term culture	blood
28	chr2:180133200-180134000	Enhancers	HUES64 Cell Line	embryonic stem cell
29	chr2:180133400-180137200	Weak transcription	NHDF-Ad	bronchial
30	chr2:180133600-180134000	Enhancers	A549	lung
31	chr2:180133600-180134000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
32	chr2:180133600-180135400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr2:180133600-180136000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr2:180133600-180136200	Weak transcription	Brain Substantia Nigra	brain
35	chr2:180133600-180138800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
36	chr2:180133600-180138800	Weak transcription	Placenta	Placenta
37	chr2:180133600-180140200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr2:180133800-180134000	Enhancers	Primary hematopoietic stem cells	blood
39	chr2:180133800-180135000	Weak transcription	Brain Hippocampus Middle	brain
40	chr2:180133800-180136000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr2:180133800-180136200	Weak transcription	Adipose Nuclei	Adipose
42	chr2:180133800-180136200	Weak transcription	HUVEC	blood vessel
43	chr2:180133800-180136200	Weak transcription	Osteobl	bone
44	chr2:180133800-180137200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr2:180133800-180137200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr2:180133800-180138800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
47	chr2:180133800-180138800	Weak transcription	HUES6 Cell Line	embryonic stem cell
48	chr2:180133800-180139200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr2:180133800-180141200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links