Variant report

Variant	rs9625887
Chromosome Location	chr22:30320657-30320658
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	chr22:30315834..30317448-chr22:30319842..30321768,2	MCF-7	breast:

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10222281	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10483156	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11090584	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11090591	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11090592	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11090597	0.81[AMR][1000 genomes]
rs11703553	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11703815	0.88[EUR][1000 genomes]
rs11704206	0.83[ASN][1000 genomes]
rs11704885	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11705191	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11705207	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11705418	0.90[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12165769	0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12166087	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12166755	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12166998	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs12169823	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12330007	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs12330076	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12627856	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12627944	0.87[ASN][1000 genomes]
rs12628395	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17644868	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17644886	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17647135	0.87[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs17713646	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28520101	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28635872	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34647160	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3747148	0.85[AFR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3788418	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3788425	0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7285169	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs737905	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs737906	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs737907	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs739615	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9620928	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9620929	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9620935	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9620936	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9620944	0.81[AMR][1000 genomes]
rs9620948	0.81[AMR][1000 genomes]
rs9625883	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9625886	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9625889	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9625894	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9625895	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9625896	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9625899	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9625910	0.81[AMR][1000 genomes]
rs9625914	0.81[AMR][1000 genomes]
rs9625930	0.81[AMR][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	nsv1064081	chr22:29826745-30623965	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv544677	chr22:29826745-30623965	Weak transcription Bivalent/Poised TSS Strong transcription Enhancers Bivalent Enhancer Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
3	nsv1064489	chr22:30316627-30361881	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:30304400-30321000	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr22:30305600-30327400	Weak transcription	Monocytes-CD14+_RO01746	blood
3	chr22:30307400-30321000	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr22:30307400-30321200	Weak transcription	Esophagus	oesophagus
5	chr22:30309200-30326400	Weak transcription	Pancreas	Pancrea
6	chr22:30310000-30327600	Weak transcription	Primary T cells fromperipheralblood	blood
7	chr22:30310200-30321000	Weak transcription	Lung	lung
8	chr22:30310800-30321800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr22:30311000-30333200	Weak transcription	Primary B cells from cord blood	blood
10	chr22:30311600-30324200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr22:30311600-30343800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr22:30311800-30340400	Weak transcription	HSMM	muscle
13	chr22:30312400-30322800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr22:30312600-30321000	Weak transcription	Right Ventricle	heart
15	chr22:30312600-30326400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
16	chr22:30312600-30339800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
17	chr22:30313000-30323600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr22:30313000-30343800	Weak transcription	Fetal Stomach	stomach
19	chr22:30313600-30321000	Weak transcription	Left Ventricle	heart
20	chr22:30313600-30339800	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr22:30313600-30354200	Weak transcription	Small Intestine	intestine
22	chr22:30314200-30321200	Weak transcription	Brain Angular Gyrus	brain
23	chr22:30314200-30334200	Weak transcription	Brain Cingulate Gyrus	brain
24	chr22:30314400-30328200	Weak transcription	Osteobl	bone
25	chr22:30314600-30321200	Weak transcription	Brain Hippocampus Middle	brain
26	chr22:30314600-30329200	Weak transcription	Primary neutrophils fromperipheralblood	blood
27	chr22:30315800-30321000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr22:30318000-30321000	Weak transcription	Ovary	ovary
29	chr22:30318000-30321600	Weak transcription	Fetal Intestine Small	intestine
30	chr22:30318000-30334000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr22:30319400-30321400	Enhancers	Adipose Nuclei	Adipose
32	chr22:30319600-30321400	Enhancers	Breast Myoepithelial Primary Cells	Breast
33	chr22:30319600-30321400	Enhancers	Colon Smooth Muscle	Colon
34	chr22:30319800-30321000	Weak transcription	Psoas Muscle	Psoas
35	chr22:30319800-30329800	Weak transcription	Right Atrium	heart
36	chr22:30319800-30333800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
37	chr22:30320400-30320800	Weak transcription	Skeletal Muscle Female	skeletal muscle
38	chr22:30320400-30323200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
39	chr22:30320400-30328200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr22:30320400-30331200	Weak transcription	Skeletal Muscle Male	skeletal muscle
41	chr22:30320400-30333800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
42	chr22:30320600-30339800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood

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