Variant report

Variant	rs3212278
Chromosome Location	chr15:41224124-41224125
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:41223425..41225650-chr15:41313290..41316160,2	MCF-7	breast:
2	chr15:41165742..41167870-chr15:41221501..41224188,2	MCF-7	breast:
3	chr15:41195189..41208751-chr15:41218816..41225232,20	MCF-7	breast:
4	chr15:41219573..41224863-chr15:41243808..41249661,11	MCF-7	breast:
5	chr15:41194927..41205036-chr15:41218861..41227276,20	MCF-7	breast:

Variant related genes	Relation type
ENSG00000251161	Chromatin interaction
ENSG00000128965	Chromatin interaction
ENSG00000104140	Chromatin interaction
ENSG00000264256	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs16971223	0.96[CEU][hapmap];0.90[EUR][1000 genomes]
rs28434362	0.90[EUR][1000 genomes]
rs4923888	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs4923889	0.84[ASN][1000 genomes]
rs4924515	0.96[CEU][hapmap];0.87[EUR][1000 genomes]
rs60237220	0.90[EUR][1000 genomes]
rs6492971	0.96[CEU][hapmap];0.91[EUR][1000 genomes]
rs7164358	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904101	chr15:40979651-41275014	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
2	esv1819092	chr15:41017682-41255750	Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	83 gene(s)	inside rSNPs	diseases
3	nsv904103	chr15:41123172-41275014	Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
4	nsv904104	chr15:41149824-41234932	Flanking Active TSS Enhancers Bivalent Enhancer Genic enhancers Weak transcription Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
5	nsv904105	chr15:41149824-41275014	Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
6	esv1819792	chr15:41184722-41234825	Weak transcription Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
7	nsv904106	chr15:41221067-41259523	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:41219600-41224800	Flanking Bivalent TSS/Enh	Fetal Muscle Trunk	muscle
2	chr15:41220200-41224800	Flanking Bivalent TSS/Enh	Fetal Muscle Leg	muscle
3	chr15:41220800-41224600	Flanking Bivalent TSS/Enh	Skeletal Muscle Female	skeletal muscle
4	chr15:41220800-41224800	Flanking Bivalent TSS/Enh	Skeletal Muscle Male	skeletal muscle
5	chr15:41220800-41225600	Flanking Bivalent TSS/Enh	Adipose Nuclei	Adipose
6	chr15:41221200-41225200	Bivalent/Poised TSS	Rectal Smooth Muscle	rectum
7	chr15:41222400-41224200	Flanking Active TSS	HUVEC	blood vessel
8	chr15:41222400-41224800	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
9	chr15:41222400-41225000	Flanking Active TSS	Duodenum Mucosa	Duodenum
10	chr15:41222600-41224200	Bivalent Enhancer	Fetal Brain Male	brain
11	chr15:41222600-41224200	Bivalent/Poised TSS	Fetal Kidney	kidney
12	chr15:41222600-41224600	Active TSS	Gastric	stomach
13	chr15:41222800-41225400	Active TSS	Psoas Muscle	Psoas
14	chr15:41223000-41224400	Bivalent/Poised TSS	Esophagus	oesophagus
15	chr15:41223200-41224200	Bivalent Enhancer	Primary T helper cells fromperipheralblood	blood
16	chr15:41223200-41224400	Active TSS	Ovary	ovary
17	chr15:41223200-41224600	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr15:41223200-41224600	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
19	chr15:41223200-41224600	Bivalent/Poised TSS	Brain Anterior Caudate	brain
20	chr15:41223200-41224800	Bivalent Enhancer	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr15:41223400-41224200	Bivalent/Poised TSS	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr15:41223400-41224400	Bivalent/Poised TSS	Brain Inferior Temporal Lobe	brain
23	chr15:41223400-41224400	Weak transcription	A549	lung
24	chr15:41223400-41224600	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr15:41223400-41224600	Bivalent/Poised TSS	Brain Dorsolateral Prefrontal Cortex	brain
26	chr15:41223400-41224800	Bivalent Enhancer	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr15:41223400-41224800	Flanking Active TSS	Liver	Liver
28	chr15:41223400-41225400	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr15:41223400-41225400	Transcr. at gene 5' and 3'	Fetal Intestine Small	intestine
30	chr15:41223400-41225400	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
31	chr15:41223400-41225600	Enhancers	GM12878-XiMat	blood
32	chr15:41223400-41225800	Enhancers	Primary hematopoietic stem cells	blood
33	chr15:41223400-41226000	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr15:41223600-41224200	Bivalent/Poised TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr15:41223600-41224200	Bivalent/Poised TSS	Fetal Adrenal Gland	Adrenal Gland
36	chr15:41223600-41224200	Flanking Bivalent TSS/Enh	Rectal Mucosa Donor 31	rectum
37	chr15:41223600-41224400	Transcr. at gene 5' and 3'	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr15:41223600-41224600	Bivalent/Poised TSS	Brain Cingulate Gyrus	brain
39	chr15:41223600-41224600	Bivalent/Poised TSS	Brain Substantia Nigra	brain
40	chr15:41223600-41224600	Enhancers	Placenta	Placenta
41	chr15:41223600-41224800	Bivalent Enhancer	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr15:41223600-41224800	Bivalent Enhancer	Thymus	Thymus
43	chr15:41223600-41224800	Transcr. at gene 5' and 3'	Spleen	Spleen
44	chr15:41223600-41224800	Flanking Bivalent TSS/Enh	HepG2	liver
45	chr15:41223600-41225200	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
46	chr15:41223600-41225400	Flanking Active TSS	Fetal Intestine Large	intestine
47	chr15:41223600-41225400	Transcr. at gene 5' and 3'	Lung	lung
48	chr15:41223600-41225600	Weak transcription	K562	blood
49	chr15:41223800-41224200	Flanking Bivalent TSS/Enh	Fetal Lung	lung
50	chr15:41223800-41224400	Active TSS	Sigmoid Colon	Sigmoid Colon

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