Variant report

Variant	rs12442804
Chromosome Location	chr15:75205464-75205465
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:75204307..75205904-chr15:75218795..75220535,2	MCF-7	breast:
2	chr15:75204201..75207198-chr15:75248620..75251894,3	MCF-7	breast:
3	chr12:120729160..120731044-chr15:75203299..75205954,2	MCF-7	breast:
4	chr15:75202900..75206033-chr15:75227299..75230499,5	K562	blood:
5	chr15:75135584..75137401-chr15:75203123..75205783,2	K562	blood:
6	chr15:75196237..75205947-chr15:75227299..75233104,18	K562	blood:
7	chr15:75197065..75200816-chr15:75202380..75207504,10	K562	blood:
8	chr15:75194057..75196372-chr15:75204591..75207418,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000198794	Chromatin interaction
ENSG00000200795	Chromatin interaction
ENSG00000178741	Chromatin interaction
ENSG00000178718	Chromatin interaction
ENSG00000178761	Chromatin interaction
ENSG00000140474	Chromatin interaction
ENSG00000202538	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs12101507	0.84[AFR][1000 genomes]
rs12101557	0.83[AFR][1000 genomes]
rs12437831	0.91[ASN][1000 genomes]
rs12439641	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12440159	0.91[ASN][1000 genomes]
rs12441499	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs2230479	0.85[AFR][1000 genomes]
rs28726277	0.83[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs3935818	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4886635	0.91[ASN][1000 genomes]
rs56671860	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs57498691	0.91[ASN][1000 genomes]
rs58856253	0.82[AFR][1000 genomes]
rs60494786	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs60698434	0.81[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs7179093	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs729263	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs8031052	0.82[AFR][1000 genomes]
rs8032473	0.86[AFR][1000 genomes]
rs9672491	0.86[AFR][1000 genomes];0.87[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	nsv904381	chr15:75108636-75242155	Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
2	esv3312325	chr15:75203053-75210647	Weak transcription Strong transcription Genic enhancers Enhancers	TF binding region Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
3	esv3312326	chr15:75203067-75210644	Strong transcription Weak transcription Genic enhancers Enhancers	TF binding region Chromatin interactive region	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:75199600-75229400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr15:75199800-75209400	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr15:75199800-75219600	Weak transcription	Aorta	Aorta
4	chr15:75200000-75205600	Weak transcription	Primary neutrophils fromperipheralblood	blood
5	chr15:75200000-75205600	Weak transcription	Primary B cells from cord blood	blood
6	chr15:75200000-75206400	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr15:75200000-75207000	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr15:75200000-75207000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr15:75200000-75207000	Weak transcription	Esophagus	oesophagus
10	chr15:75200000-75207200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr15:75200000-75207200	Weak transcription	Gastric	stomach
12	chr15:75200000-75209600	Weak transcription	Psoas Muscle	Psoas
13	chr15:75200000-75209800	Weak transcription	Ovary	ovary
14	chr15:75200000-75209800	Weak transcription	Small Intestine	intestine
15	chr15:75200000-75211000	Weak transcription	Fetal Kidney	kidney
16	chr15:75200000-75211600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr15:75200000-75221000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr15:75200000-75224000	Weak transcription	Stomach Mucosa	stomach
19	chr15:75200200-75205600	Weak transcription	Brain Anterior Caudate	brain
20	chr15:75200200-75206400	Weak transcription	Primary B cells from peripheral blood	blood
21	chr15:75200200-75206400	Weak transcription	Brain Angular Gyrus	brain
22	chr15:75200200-75207000	Weak transcription	Colonic Mucosa	Colon
23	chr15:75200200-75207000	Weak transcription	Duodenum Smooth Muscle	Duodenum
24	chr15:75200200-75207000	Weak transcription	Spleen	Spleen
25	chr15:75200200-75207000	Weak transcription	HUVEC	blood vessel
26	chr15:75200200-75207200	Weak transcription	Primary T helper cells fromperipheralblood	blood
27	chr15:75200200-75207400	Weak transcription	Colon Smooth Muscle	Colon
28	chr15:75200200-75207600	Weak transcription	Fetal Lung	lung
29	chr15:75200200-75208800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr15:75200200-75209800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
31	chr15:75200200-75209800	Weak transcription	HepG2	liver
32	chr15:75200200-75209800	Weak transcription	HMEC	breast
33	chr15:75200200-75210800	Weak transcription	Fetal Brain Male	brain
34	chr15:75200200-75211000	Weak transcription	NHDF-Ad	bronchial
35	chr15:75200400-75205600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
36	chr15:75200400-75207000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr15:75200400-75207000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
38	chr15:75200400-75207000	Weak transcription	Dnd41	blood
39	chr15:75200400-75207400	Weak transcription	Primary T helper cells PMA-I stimulated	--
40	chr15:75200400-75207600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
41	chr15:75200400-75211000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
42	chr15:75200400-75211400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
43	chr15:75200400-75211400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
44	chr15:75200400-75221200	Weak transcription	Fetal Heart	heart
45	chr15:75201000-75213000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr15:75201000-75224600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
47	chr15:75202000-75224400	Strong transcription	Fetal Muscle Trunk	muscle
48	chr15:75202200-75206000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr15:75202200-75211800	Strong transcription	Fetal Intestine Small	intestine
50	chr15:75202200-75212000	Strong transcription	Fetal Stomach	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links