Variant report

Variant	rs12906271
Chromosome Location	chr15:52651142-52651143
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:52650099..52651958-chr15:52659243..52660871,2	MCF-7	breast:
2	chr15:52646089..52648617-chr15:52650499..52653001,2	K562	blood:
3	chr15:52650282..52651929-chr15:52678734..52680438,2	MCF-7	breast:

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10444828	1.00[EUR][1000 genomes]
rs12910858	1.00[EUR][1000 genomes]
rs12914306	1.00[EUR][1000 genomes]
rs12914548	1.00[EUR][1000 genomes]
rs2414136	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2414140	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2414149	1.00[EUR][1000 genomes]
rs2693460	0.85[YRI][hapmap];1.00[EUR][1000 genomes]
rs28421476	1.00[EUR][1000 genomes]
rs2924130	1.00[EUR][1000 genomes]
rs4238391	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6493553	1.00[MKK][hapmap];0.90[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7183258	1.00[EUR][1000 genomes]
rs73404874	1.00[AMR][1000 genomes]
rs8024131	1.00[EUR][1000 genomes]
rs8035121	0.90[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8035295	0.90[YRI][hapmap]
rs8037882	1.00[MKK][hapmap];0.90[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][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	esv1846455	chr15:52501831-52714452	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Active TSS 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	17 gene(s)	inside rSNPs	diseases
2	nsv471245	chr15:52607262-53187165	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52607800-52657800	Weak transcription	Small Intestine	intestine
2	chr15:52609800-52677600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr15:52611800-52675800	Weak transcription	Gastric	stomach
4	chr15:52613600-52666600	Weak transcription	Right Ventricle	heart
5	chr15:52614800-52653200	Weak transcription	Colonic Mucosa	Colon
6	chr15:52620000-52652200	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr15:52620600-52659200	Weak transcription	Fetal Lung	lung
8	chr15:52621200-52666600	Weak transcription	Fetal Brain Male	brain
9	chr15:52621800-52662200	Weak transcription	Psoas Muscle	Psoas
10	chr15:52630600-52684800	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr15:52631600-52679200	Weak transcription	Fetal Intestine Small	intestine
12	chr15:52632600-52670400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr15:52632800-52657400	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr15:52632800-52662200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr15:52633600-52662200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
16	chr15:52638000-52671600	Weak transcription	Pancreatic Islets	Pancreatic Islet
17	chr15:52640200-52655000	Weak transcription	Liver	Liver
18	chr15:52640600-52666600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr15:52641800-52666800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr15:52643600-52655600	Weak transcription	HUES6 Cell Line	embryonic stem cell
21	chr15:52643800-52654000	Weak transcription	Osteobl	bone
22	chr15:52643800-52655400	Weak transcription	HUES64 Cell Line	embryonic stem cell
23	chr15:52644000-52664200	Weak transcription	NHLF	lung
24	chr15:52644000-52666600	Weak transcription	Fetal Muscle Trunk	muscle
25	chr15:52644200-52661000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
26	chr15:52644200-52680800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr15:52644600-52652000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
28	chr15:52644600-52652200	Weak transcription	Aorta	Aorta
29	chr15:52644600-52653400	Strong transcription	Monocytes-CD14+_RO01746	blood
30	chr15:52644600-52654200	Weak transcription	Right Atrium	heart
31	chr15:52644600-52660200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
32	chr15:52644600-52661200	Weak transcription	Thymus	Thymus
33	chr15:52644600-52661600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr15:52644600-52662000	Weak transcription	Rectal Smooth Muscle	rectum
35	chr15:52644600-52662200	Weak transcription	Fetal Muscle Leg	muscle
36	chr15:52644600-52662400	Weak transcription	Duodenum Mucosa	Duodenum
37	chr15:52644600-52662400	Weak transcription	Fetal Stomach	stomach
38	chr15:52644600-52663800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr15:52644600-52663800	Weak transcription	Spleen	Spleen
40	chr15:52644600-52665400	Weak transcription	A549	lung
41	chr15:52644600-52730200	Weak transcription	Esophagus	oesophagus
42	chr15:52644800-52653200	Strong transcription	Primary monocytes fromperipheralblood	blood
43	chr15:52644800-52655600	Weak transcription	Dnd41	blood
44	chr15:52645600-52661200	Weak transcription	NH-A	brain
45	chr15:52645800-52652200	Weak transcription	Brain Inferior Temporal Lobe	brain
46	chr15:52645800-52657400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
47	chr15:52645800-52661000	Weak transcription	HUES48 Cell Line	embryonic stem cell
48	chr15:52645800-52661000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
49	chr15:52646000-52660400	Weak transcription	Placenta	Placenta
50	chr15:52646000-52661600	Weak transcription	iPS-20b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links