Variant report

Variant	rs8086265
Chromosome Location	chr18:12672287-12672288
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	chr18:12672017..12674011-chr18:12701088..12702712,2	MCF-7	breast:
2	chr18:12671690..12675080-chr18:12702112..12705449,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000128789	Chromatin interaction
ENSG00000101624	Chromatin interaction

Extended variants
information (count: 118 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:107)

rs_ID	r²[population]
rs1062235	0.92[ASN][1000 genomes]
rs1129214	0.92[ASN][1000 genomes]
rs12373207	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12373259	0.91[ASN][1000 genomes]
rs12454322	0.84[EUR][1000 genomes]
rs12455268	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12455295	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12457771	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12458097	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12458895	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12954079	0.92[ASN][1000 genomes]
rs12957555	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12957603	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12957810	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12960623	0.96[ASN][1000 genomes]
rs12960997	0.92[ASN][1000 genomes]
rs12962598	0.92[ASN][1000 genomes]
rs12963505	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12964507	0.91[ASN][1000 genomes]
rs12965733	0.87[ASN][1000 genomes]
rs12965990	0.92[ASN][1000 genomes]
rs12966246	0.86[ASN][1000 genomes]
rs12966367	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12966424	0.92[ASN][1000 genomes]
rs12968771	0.96[ASN][1000 genomes]
rs12969300	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12969446	0.92[ASN][1000 genomes]
rs12969938	0.92[ASN][1000 genomes]
rs12971256	0.87[ASN][1000 genomes]
rs1362709	0.90[ASN][1000 genomes]
rs1549011	0.92[ASN][1000 genomes]
rs1592642	0.87[ASN][1000 genomes]
rs1592643	0.87[ASN][1000 genomes]
rs17616402	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1971702	0.86[ASN][1000 genomes]
rs2011575	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2011579	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2051262	0.91[ASN][1000 genomes]
rs2302768	0.91[ASN][1000 genomes]
rs28820339	0.87[ASN][1000 genomes]
rs28832066	0.92[ASN][1000 genomes]
rs34040888	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34120824	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34277169	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34472716	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34537593	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34632667	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34690304	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34847769	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35322088	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35506854	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35634465	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35699948	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35898717	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3809919	0.91[ASN][1000 genomes]
rs3902981	0.85[ASN][1000 genomes]
rs4296322	0.88[ASN][1000 genomes]
rs45589535	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs45596833	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4633785	0.92[ASN][1000 genomes]
rs55870255	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62095975	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62096023	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62096046	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62096048	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6505760	0.87[ASN][1000 genomes]
rs66808227	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7233175	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7233694	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7507018	0.92[ASN][1000 genomes]
rs8083182	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8083217	0.82[ASN][1000 genomes]
rs8086099	0.87[ASN][1000 genomes]
rs8086846	0.85[EUR][1000 genomes]
rs8097134	0.87[ASN][1000 genomes]
rs9303774	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9303775	0.92[ASN][1000 genomes]
rs9303776	0.89[ASN][1000 genomes]
rs933600	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs948319	0.91[ASN][1000 genomes]
rs963920	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9945140	0.92[ASN][1000 genomes]
rs9945644	0.92[ASN][1000 genomes]
rs9945801	0.92[ASN][1000 genomes]
rs9948844	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9949293	0.92[ASN][1000 genomes]
rs9950365	0.92[ASN][1000 genomes]
rs9951576	0.92[ASN][1000 genomes]
rs9952000	0.92[ASN][1000 genomes]
rs9954112	0.92[ASN][1000 genomes]
rs9955985	0.92[ASN][1000 genomes]
rs9957880	0.91[ASN][1000 genomes]
rs9958100	0.90[ASN][1000 genomes]
rs9958412	0.92[ASN][1000 genomes]
rs9959039	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9959458	0.92[ASN][1000 genomes]
rs9959536	0.91[ASN][1000 genomes]
rs9960555	0.91[ASN][1000 genomes]
rs9961799	0.87[ASN][1000 genomes]
rs9962006	0.92[ASN][1000 genomes]
rs9963809	0.87[ASN][1000 genomes]
rs9964868	0.94[ASN][1000 genomes]
rs9966464	0.90[ASN][1000 genomes]
rs9966490	0.91[ASN][1000 genomes]
rs9966672	0.91[ASN][1000 genomes]
rs9967437	0.92[ASN][1000 genomes]
rs9967553	0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1063125	chr18:12046892-12918251	Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	130 gene(s)	inside rSNPs	diseases
2	nsv491873	chr18:12159445-12739784	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases
3	esv3528039	chr18:12396582-12851293	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
4	esv3528041	chr18:12396641-12851245	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
5	nsv523743	chr18:12474505-12742809	Active TSS Weak transcription Enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
6	esv1820040	chr18:12635601-12725236	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
7	esv1817845	chr18:12635601-12733705	Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
8	esv1821625	chr18:12635601-12733705	Active TSS Weak transcription Strong transcription Genic enhancers Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
9	esv1791969	chr18:12643193-12697711	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
10	esv3397790	chr18:12649001-12673755	Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
11	nsv576507	chr18:12657195-12673187	Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs8086265	RP11-861E21.2	cis	Muscle Skeletal	GTEx
rs8086265	SPIRE1	cis	Muscle Skeletal	GTEx
rs8086265	TNFSF5IP1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:12658000-12672800	Weak transcription	K562	blood
2	chr18:12658400-12674000	Weak transcription	Spleen	Spleen
3	chr18:12658800-12673400	Weak transcription	Primary T cells from cord blood	blood
4	chr18:12658800-12674000	Weak transcription	Fetal Lung	lung
5	chr18:12658800-12674000	Weak transcription	Rectal Smooth Muscle	rectum
6	chr18:12658800-12679200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr18:12658800-12701800	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr18:12659000-12672400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr18:12659000-12672400	Weak transcription	Primary T helper cells fromperipheralblood	blood
10	chr18:12659000-12672400	Weak transcription	Duodenum Mucosa	Duodenum
11	chr18:12659000-12672400	Weak transcription	Placenta	Placenta
12	chr18:12659000-12672400	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr18:12659000-12672800	Weak transcription	NH-A	brain
14	chr18:12659000-12673200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr18:12659000-12673200	Weak transcription	Brain Substantia Nigra	brain
16	chr18:12659000-12673200	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr18:12659000-12673400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr18:12659000-12673400	Weak transcription	Fetal Muscle Leg	muscle
19	chr18:12659000-12673400	Weak transcription	Left Ventricle	heart
20	chr18:12659000-12674000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
21	chr18:12659000-12674000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
22	chr18:12659000-12674000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr18:12659000-12674000	Weak transcription	Brain Angular Gyrus	brain
24	chr18:12659000-12674000	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr18:12659000-12674000	Weak transcription	Right Ventricle	heart
26	chr18:12659000-12676600	Weak transcription	Colon Smooth Muscle	Colon
27	chr18:12659000-12679200	Weak transcription	Primary hematopoietic stem cells	blood
28	chr18:12659000-12679200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr18:12659000-12679400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
30	chr18:12659000-12700200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr18:12659200-12672400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
32	chr18:12659200-12672400	Weak transcription	Liver	Liver
33	chr18:12659200-12672400	Weak transcription	Duodenum Smooth Muscle	Duodenum
34	chr18:12659200-12673000	Weak transcription	Osteobl	bone
35	chr18:12659200-12673200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr18:12659200-12673400	Weak transcription	Brain Anterior Caudate	brain
37	chr18:12659200-12673800	Weak transcription	H9 Cell Line	embryonic stem cell
38	chr18:12659200-12674000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
39	chr18:12659200-12674000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr18:12659200-12674000	Weak transcription	HSMMtube	muscle
41	chr18:12659400-12672400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr18:12659400-12672400	Weak transcription	HUES64 Cell Line	embryonic stem cell
43	chr18:12659400-12672400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
44	chr18:12659400-12673200	Weak transcription	Adipose Nuclei	Adipose
45	chr18:12659600-12674000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr18:12659800-12679200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr18:12660000-12692600	Weak transcription	Brain Cingulate Gyrus	brain
48	chr18:12660200-12677800	Weak transcription	HMEC	breast
49	chr18:12660400-12672400	Weak transcription	Monocytes-CD14+_RO01746	blood
50	chr18:12660400-12674000	Weak transcription	iPS-15b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links