Variant report

Variant	rs16831100
Chromosome Location	chr2:153277801-153277802
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:153276918..153279162-chr2:153293453..153296119,2	MCF-7	breast:
2	chr2:153263868..153266677-chr2:153276487..153278444,2	MCF-7	breast:
3	chr2:153276442..153278166-chr2:153280321..153283147,2	K562	blood:
4	chr2:153031837..153033844-chr2:153276371..153278514,2	MCF-7	breast:
5	chr2:153271973..153274703-chr2:153276491..153278675,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000115145	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10931079	0.93[ASN][1000 genomes]
rs11694392	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11696004	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12476186	0.93[ASN][1000 genomes]
rs12693362	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12999503	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13388095	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16831021	0.86[ASN][1000 genomes]
rs16831082	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16831093	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16831118	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2345874	0.93[ASN][1000 genomes]
rs2881335	0.80[ASN][1000 genomes]
rs34006820	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35662043	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3811576	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs66663920	0.89[ASN][1000 genomes]
rs6746538	0.93[ASN][1000 genomes]
rs6757782	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6761178	0.93[ASN][1000 genomes]
rs67689907	0.89[ASN][1000 genomes]
rs67761838	0.86[ASN][1000 genomes]
rs73012774	0.93[ASN][1000 genomes]
rs73012784	0.93[ASN][1000 genomes]
rs7587450	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7601047	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834419	chr2:153179420-153381476	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	esv3693436	chr2:153219836-153479857	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv875291	chr2:153251742-153339823	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv1013777	chr2:153273637-153538546	Weak transcription Strong transcription Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:91 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:153264200-153288200	Weak transcription	Stomach Smooth Muscle	stomach
2	chr2:153264400-153278000	Weak transcription	Fetal Kidney	kidney
3	chr2:153265200-153278000	Weak transcription	Fetal Lung	lung
4	chr2:153266000-153278800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
5	chr2:153266200-153279000	Enhancers	Brain Angular Gyrus	brain
6	chr2:153267000-153278800	Enhancers	Brain Cingulate Gyrus	brain
7	chr2:153267000-153279200	Enhancers	Brain Substantia Nigra	brain
8	chr2:153269800-153279200	Enhancers	Brain Inferior Temporal Lobe	brain
9	chr2:153270200-153278000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr2:153270200-153279800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr2:153270600-153279800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr2:153271000-153279000	Enhancers	Skeletal Muscle Female	skeletal muscle
13	chr2:153272600-153278400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr2:153272600-153284800	Weak transcription	Colon Smooth Muscle	Colon
15	chr2:153272600-153285400	Weak transcription	Gastric	stomach
16	chr2:153272800-153288200	Weak transcription	Right Atrium	heart
17	chr2:153274000-153280800	Enhancers	Primary monocytes fromperipheralblood	blood
18	chr2:153274600-153278400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr2:153274800-153279200	Enhancers	Skeletal Muscle Male	skeletal muscle
20	chr2:153275000-153278400	Enhancers	Cortex derived primary cultured neurospheres	brain
21	chr2:153275000-153279000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr2:153275000-153279000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr2:153275200-153282600	Weak transcription	Fetal Brain Male	brain
24	chr2:153276000-153278400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr2:153276000-153278800	Enhancers	HUES6 Cell Line	embryonic stem cell
26	chr2:153276200-153278400	Enhancers	Hela-S3	cervix
27	chr2:153276200-153278600	Enhancers	ES-I3 Cell Line	embryonic stem cell
28	chr2:153276200-153278600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr2:153276200-153278800	Enhancers	HUES64 Cell Line	embryonic stem cell
30	chr2:153276200-153279400	Enhancers	Placenta	Placenta
31	chr2:153276200-153280600	Enhancers	Breast Myoepithelial Primary Cells	Breast
32	chr2:153276200-153280600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr2:153276400-153278200	Enhancers	GM12878-XiMat	blood
34	chr2:153276400-153278600	Enhancers	iPS-18 Cell Line	embryonic stem cell
35	chr2:153276400-153278600	Enhancers	iPS-20b Cell Line	embryonic stem cell
36	chr2:153276600-153278000	Enhancers	HepG2	liver
37	chr2:153276600-153278200	Enhancers	HMEC	breast
38	chr2:153276600-153278400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
39	chr2:153276600-153280200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr2:153276600-153282800	Weak transcription	Fetal Brain Female	brain
41	chr2:153276800-153278400	Enhancers	Muscle Satellite Cultured Cells	--
42	chr2:153276800-153279200	Enhancers	NHDF-Ad	bronchial
43	chr2:153276800-153279200	Enhancers	Osteobl	bone
44	chr2:153276800-153280400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr2:153277000-153278200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
46	chr2:153277000-153278800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr2:153277000-153279000	Enhancers	Adipose Nuclei	Adipose
48	chr2:153277000-153279000	Enhancers	NHLF	lung
49	chr2:153277200-153278200	Enhancers	H1 Cell Line	embryonic stem cell
50	chr2:153277200-153278200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links