Variant report

Variant	rs13412781
Chromosome Location	chr2:152122463-152122464
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:152119643..152123039-chr2:152125145..152128347,3	MCF-7	breast:
2	chr2:152120748..152123365-chr2:152146152..152147771,2	MCF-7	breast:
3	chr2:152116911..152121023-chr2:152121243..152124083,4	MCF-7	breast:
4	chr2:152117885..152120155-chr2:152120672..152124078,4	K562	blood:
5	chr2:152117387..152119755-chr2:152119939..152122584,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000184898	Chromatin interaction
ENSG00000123609	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10173695	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs10179626	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10180428	1.00[AMR][1000 genomes]
rs10190464	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10191465	1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10193304	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10195365	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10201647	1.00[AMR][1000 genomes]
rs10202368	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10203338	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10205770	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10205976	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10206584	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10210009	1.00[AMR][1000 genomes]
rs12328054	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12328381	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12328560	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13383657	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13385932	1.00[AMR][1000 genomes]
rs13387765	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13389056	1.00[AMR][1000 genomes]
rs13389461	1.00[AMR][1000 genomes]
rs13390792	1.00[AMR][1000 genomes]
rs13394505	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13395395	1.00[AMR][1000 genomes]
rs13395749	1.00[AMR][1000 genomes]
rs13399299	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13401756	1.00[YRI][hapmap]
rs13404713	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13408667	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13408684	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13411396	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13412493	1.00[AMR][1000 genomes]
rs13417120	1.00[AMR][1000 genomes]
rs13418019	1.00[AMR][1000 genomes]
rs13418799	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13420365	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13423692	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13426840	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2303341	1.00[AMR][1000 genomes]
rs28445248	1.00[AMR][1000 genomes]
rs28493579	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28529741	1.00[AMR][1000 genomes]
rs3771899	1.00[AMR][1000 genomes]
rs56801020	1.00[AMR][1000 genomes]
rs59089077	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59356545	1.00[AMR][1000 genomes]
rs6705615	1.00[YRI][hapmap]
rs6719796	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6724871	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6747290	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9989812	1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv523849	chr2:151718133-152143524	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	esv3693426	chr2:151725792-152295862	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv834417	chr2:151980473-152154950	Enhancers Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv1012891	chr2:152019809-152306897	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
5	nsv1013484	chr2:152028515-152473913	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
6	nsv535983	chr2:152028515-152473913	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
7	nsv1012139	chr2:152114637-152389516	Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
8	nsv1011339	chr2:152114637-152392940	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:86 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:152118400-152126400	Weak transcription	Spleen	Spleen
2	chr2:152118600-152126400	Weak transcription	Lung	lung
3	chr2:152118600-152126600	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr2:152118600-152133800	Weak transcription	Gastric	stomach
5	chr2:152118600-152142800	Weak transcription	Small Intestine	intestine
6	chr2:152118800-152123000	Weak transcription	Fetal Brain Female	brain
7	chr2:152118800-152125000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr2:152118800-152126200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr2:152118800-152126200	Weak transcription	Placenta	Placenta
10	chr2:152118800-152126400	Weak transcription	Fetal Intestine Large	intestine
11	chr2:152118800-152126400	Weak transcription	Fetal Muscle Trunk	muscle
12	chr2:152118800-152126400	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr2:152118800-152126400	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr2:152118800-152126600	Weak transcription	Esophagus	oesophagus
15	chr2:152118800-152129800	Weak transcription	Colonic Mucosa	Colon
16	chr2:152118800-152130000	Weak transcription	Fetal Stomach	stomach
17	chr2:152118800-152130600	Weak transcription	Fetal Intestine Small	intestine
18	chr2:152118800-152133800	Weak transcription	Fetal Muscle Leg	muscle
19	chr2:152118800-152134000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr2:152118800-152144000	Weak transcription	Stomach Mucosa	stomach
21	chr2:152118800-152144200	Weak transcription	Psoas Muscle	Psoas
22	chr2:152119000-152123400	Weak transcription	GM12878-XiMat	blood
23	chr2:152119000-152124600	Weak transcription	Primary neutrophils fromperipheralblood	blood
24	chr2:152119000-152126200	Weak transcription	Primary monocytes fromperipheralblood	blood
25	chr2:152119000-152126200	Weak transcription	Monocytes-CD14+_RO01746	blood
26	chr2:152119000-152126400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr2:152119000-152126400	Weak transcription	Primary B cells from peripheral blood	blood
28	chr2:152119000-152126400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr2:152119000-152126400	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr2:152119000-152126400	Weak transcription	Rectal Mucosa Donor 29	rectum
31	chr2:152119000-152126400	Weak transcription	Skeletal Muscle Female	skeletal muscle
32	chr2:152119000-152126600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
33	chr2:152119000-152127000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
34	chr2:152119000-152129400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr2:152119000-152132000	Weak transcription	Rectal Smooth Muscle	rectum
36	chr2:152119000-152133600	Weak transcription	Stomach Smooth Muscle	stomach
37	chr2:152119000-152134200	Weak transcription	NHLF	lung
38	chr2:152119000-152137000	Weak transcription	Osteobl	bone
39	chr2:152119000-152145000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr2:152119000-152145200	Weak transcription	Brain Cingulate Gyrus	brain
41	chr2:152119000-152145200	Weak transcription	NHEK	skin
42	chr2:152119000-152145800	Weak transcription	HSMM	muscle
43	chr2:152119200-152126000	Weak transcription	Primary T helper cells fromperipheralblood	blood
44	chr2:152119200-152126400	Weak transcription	Primary T cells from cord blood	blood
45	chr2:152119200-152126400	Weak transcription	Adipose Nuclei	Adipose
46	chr2:152119200-152126600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
47	chr2:152119200-152126600	Weak transcription	Thymus	Thymus
48	chr2:152119200-152126600	Weak transcription	HUVEC	blood vessel
49	chr2:152119200-152127600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
50	chr2:152119200-152128800	Weak transcription	Primary T helper naive cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links