Variant report

Variant	rs73077887
Chromosome Location	chr12:30836370-30836371
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	chr12:30835899..30838387-chr12:30843101..30844801,2	MCF-7	breast:

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs11608803	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11613738	0.93[AMR][1000 genomes]
rs11614046	0.82[AMR][1000 genomes]
rs17486840	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17560141	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17687472	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17687791	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17687846	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17687964	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17688437	1.00[ASN][1000 genomes]
rs17688567	0.96[AMR][1000 genomes]
rs17739338	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2099029	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2882856	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4459394	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4930937	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4931357	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4931358	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4931359	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4931363	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55957969	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7300410	1.00[ASN][1000 genomes]
rs73077865	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73077869	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73077870	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73077877	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73077884	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73077893	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73079959	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73079962	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73079965	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73079966	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73079970	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73079971	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73079992	1.00[ASN][1000 genomes]
rs73079995	1.00[ASN][1000 genomes]
rs73079996	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][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	esv3343291	chr12:30455597-30992837	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
2	nsv832361	chr12:30794030-30997241	Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Weak transcription Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
3	nsv949148	chr12:30800040-31131712	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:30767000-30844200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr12:30780800-30847000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr12:30784800-30836600	Weak transcription	Fetal Heart	heart
4	chr12:30785000-30847800	Weak transcription	Gastric	stomach
5	chr12:30785200-30846400	Weak transcription	Spleen	Spleen
6	chr12:30785400-30847200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr12:30808000-30837800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr12:30808600-30839200	Strong transcription	Liver	Liver
9	chr12:30808800-30838000	Strong transcription	Primary T helper cells fromperipheralblood	blood
10	chr12:30810000-30838200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr12:30810800-30843200	Strong transcription	Dnd41	blood
12	chr12:30810800-30843800	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr12:30811000-30844200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr12:30812200-30837400	Strong transcription	Primary B cells from peripheral blood	blood
15	chr12:30812600-30844200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr12:30813000-30839400	Strong transcription	Primary T cells fromperipheralblood	blood
17	chr12:30813200-30844200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr12:30813600-30844200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr12:30815400-30845800	Weak transcription	Fetal Brain Male	brain
20	chr12:30816200-30844000	Weak transcription	NHEK	skin
21	chr12:30816400-30844200	Weak transcription	NHLF	lung
22	chr12:30820800-30836600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr12:30821600-30837600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr12:30821600-30844200	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr12:30821800-30847200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chr12:30821800-30847400	Weak transcription	Lung	lung
27	chr12:30822000-30846600	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr12:30822600-30843800	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr12:30822600-30845600	Weak transcription	Right Ventricle	heart
30	chr12:30822600-30846400	Weak transcription	Esophagus	oesophagus
31	chr12:30822600-30847400	Weak transcription	Aorta	Aorta
32	chr12:30822800-30839200	Weak transcription	Psoas Muscle	Psoas
33	chr12:30822800-30844200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr12:30825000-30837400	Strong transcription	Fetal Thymus	thymus
35	chr12:30825000-30839600	Strong transcription	Primary T helper cells PMA-I stimulated	--
36	chr12:30826000-30845600	Weak transcription	Brain Germinal Matrix	brain
37	chr12:30826200-30837400	Strong transcription	Muscle Satellite Cultured Cells	--
38	chr12:30827000-30847000	Weak transcription	Colonic Mucosa	Colon
39	chr12:30827800-30836800	Weak transcription	HepG2	liver
40	chr12:30827800-30844200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
41	chr12:30828200-30844200	Weak transcription	K562	blood
42	chr12:30829200-30838000	Weak transcription	Fetal Intestine Small	intestine
43	chr12:30829200-30844200	Weak transcription	Pancreas	Pancrea
44	chr12:30829600-30844200	Weak transcription	Small Intestine	intestine
45	chr12:30830200-30840600	Weak transcription	Brain Angular Gyrus	brain
46	chr12:30830400-30837200	Weak transcription	Fetal Kidney	kidney
47	chr12:30830400-30844000	Weak transcription	HMEC	breast
48	chr12:30830400-30844200	Weak transcription	Brain Inferior Temporal Lobe	brain
49	chr12:30830400-30846600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
50	chr12:30830600-30843000	Weak transcription	HSMMtube	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links