Variant report

Variant	rs2899004
Chromosome Location	chr15:41241929-41241930
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:41164626..41166627-chr15:41240824..41242386,2	MCF-7	breast:
2	chr15:41219948..41223850-chr15:41241031..41249080,13	K562	blood:
3	chr15:41241650..41243444-chr15:41244246..41246141,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000128917	Chromatin interaction
ENSG00000104140	Chromatin interaction
ENSG00000128965	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs11070310	1.00[GIH][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4924517	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55805015	0.83[EUR][1000 genomes]
rs56038127	0.83[EUR][1000 genomes]
rs73402523	0.83[EUR][1000 genomes]
rs74014718	0.83[EUR][1000 genomes]
rs936223	1.00[GIH][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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	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
5	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:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:41235400-41244600	Weak transcription	NHLF	lung
2	chr15:41235800-41244800	Weak transcription	Esophagus	oesophagus
3	chr15:41236200-41244600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr15:41238600-41244400	Weak transcription	GM12878-XiMat	blood
5	chr15:41240600-41242200	Enhancers	H9 Cell Line	embryonic stem cell
6	chr15:41240800-41242600	Enhancers	K562	blood
7	chr15:41241000-41242000	Enhancers	H1 Cell Line	embryonic stem cell
8	chr15:41241000-41242000	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr15:41241000-41242000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr15:41241000-41242000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
11	chr15:41241000-41242000	Enhancers	Left Ventricle	heart
12	chr15:41241000-41242200	Enhancers	Lung	lung
13	chr15:41241200-41242000	Enhancers	HUES48 Cell Line	embryonic stem cell
14	chr15:41241200-41242200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr15:41241200-41242200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr15:41241200-41242400	Enhancers	Skeletal Muscle Female	skeletal muscle
17	chr15:41241200-41244000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr15:41241200-41244200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr15:41241400-41242000	Enhancers	Pancreas	Pancrea
20	chr15:41241400-41242000	Enhancers	Sigmoid Colon	Sigmoid Colon
21	chr15:41241400-41242200	Enhancers	Rectal Mucosa Donor 29	rectum
22	chr15:41241400-41242200	Enhancers	Stomach Mucosa	stomach
23	chr15:41241400-41242400	Enhancers	Adipose Nuclei	Adipose
24	chr15:41241400-41242400	Enhancers	Duodenum Mucosa	Duodenum
25	chr15:41241400-41242400	Enhancers	Skeletal Muscle Male	skeletal muscle
26	chr15:41241400-41242600	Enhancers	Fetal Intestine Small	intestine
27	chr15:41241400-41242600	Enhancers	Rectal Mucosa Donor 31	rectum
28	chr15:41241400-41243000	Enhancers	Liver	Liver
29	chr15:41241400-41244400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
30	chr15:41241400-41244600	Weak transcription	Brain Cingulate Gyrus	brain
31	chr15:41241600-41242000	Enhancers	Colonic Mucosa	Colon
32	chr15:41241600-41242000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
33	chr15:41241600-41242400	Enhancers	Psoas Muscle	Psoas
34	chr15:41241600-41242400	Bivalent Enhancer	HepG2	liver
35	chr15:41241600-41242600	Enhancers	Fetal Intestine Large	intestine
36	chr15:41241600-41244400	Weak transcription	HUES6 Cell Line	embryonic stem cell
37	chr15:41241600-41244400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr15:41241800-41242400	Enhancers	Breast Myoepithelial Primary Cells	Breast
39	chr15:41241800-41242400	Enhancers	Hela-S3	cervix
40	chr15:41241800-41244400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
41	chr15:41241800-41244600	Weak transcription	Primary hematopoietic stem cells	blood
42	chr15:41241800-41244600	Weak transcription	Fetal Thymus	thymus
43	chr15:41241800-41244600	Weak transcription	Gastric	stomach

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