Variant report

Variant	rs17302439
Chromosome Location	chr2:173949115-173949116
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:173948750..173951151-chr2:174239109..174240724,2	K562	blood:
2	chr2:173938088..173944133-chr2:173944779..173953152,16	MCF-7	breast:

Variant related genes	Relation type
ENSG00000091436	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs17302684	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17375006	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17761097	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3769178	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3769186	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3769188	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3769198	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3769202	1.00[ASN][1000 genomes]
rs3769209	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3820834	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs41268711	0.86[AMR][1000 genomes]
rs7585076	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7585396	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv1011724	chr2:173916482-174231908	Enhancers Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	nsv834460	chr2:173919464-174085288	Strong transcription Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:173941600-173955200	Weak transcription	Lung	lung
2	chr2:173941600-173955200	Weak transcription	Pancreas	Pancrea
3	chr2:173941600-173969600	Weak transcription	Spleen	Spleen
4	chr2:173941800-173955200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr2:173941800-173955200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr2:173942000-173951400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr2:173942000-173953000	Weak transcription	Stomach Mucosa	stomach
8	chr2:173942000-173955200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr2:173942000-173955400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr2:173942000-173956000	Weak transcription	Fetal Thymus	thymus
11	chr2:173942600-173956400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr2:173942800-173954800	Weak transcription	Monocytes-CD14+_RO01746	blood
13	chr2:173942800-173955800	Weak transcription	Primary monocytes fromperipheralblood	blood
14	chr2:173942800-173964600	Weak transcription	HUVEC	blood vessel
15	chr2:173942800-173971400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr2:173943000-173971200	Weak transcription	HSMMtube	muscle
17	chr2:173943200-173955000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr2:173943400-173951200	Weak transcription	Aorta	Aorta
19	chr2:173943400-173955200	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr2:173943400-173955200	Weak transcription	Dnd41	blood
21	chr2:173943400-173974200	Weak transcription	Fetal Intestine Large	intestine
22	chr2:173943800-173956000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr2:173944000-173951200	Weak transcription	Fetal Lung	lung
24	chr2:173944800-173951200	Weak transcription	Fetal Stomach	stomach
25	chr2:173945400-173991200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr2:173945600-173949400	Weak transcription	NHLF	lung
27	chr2:173945600-173951200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr2:173945600-173951200	Weak transcription	Hela-S3	cervix
29	chr2:173945800-173951200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr2:173946200-173951200	Weak transcription	Muscle Satellite Cultured Cells	--
31	chr2:173946800-173951800	Weak transcription	HepG2	liver
32	chr2:173947000-173949800	Enhancers	Colon Smooth Muscle	Colon
33	chr2:173947000-173955200	Weak transcription	Fetal Muscle Trunk	muscle
34	chr2:173947400-173951200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
35	chr2:173947400-173951200	Weak transcription	K562	blood
36	chr2:173947400-173951200	Weak transcription	NHEK	skin
37	chr2:173947400-173953200	Enhancers	Liver	Liver
38	chr2:173947600-173950000	Enhancers	A549	lung
39	chr2:173947600-173950600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr2:173947600-173950600	Weak transcription	Left Ventricle	heart
41	chr2:173947600-173950600	Weak transcription	Ovary	ovary
42	chr2:173947600-173951000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr2:173947600-173951000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr2:173947600-173951200	Weak transcription	HMEC	breast
45	chr2:173947600-173951400	Weak transcription	Esophagus	oesophagus
46	chr2:173947600-173951400	Weak transcription	Right Ventricle	heart
47	chr2:173947600-173954200	Weak transcription	Fetal Intestine Small	intestine
48	chr2:173947600-173955000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
49	chr2:173947600-173955200	Weak transcription	Fetal Muscle Leg	muscle
50	chr2:173947600-173955200	Weak transcription	Gastric	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links