Variant report

Variant	rs2929661
Chromosome Location	chr10:5819786-5819787
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:5819103..5820799-chr10:5833032..5835919,2	MCF-7	breast:

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs2912348	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs2912350	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs2929667	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs2958300	0.84[AMR][1000 genomes]
rs35779704	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534685	chr10:4914018-5853324	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
2	esv34147	chr10:5726821-6105717	Strong transcription Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
3	esv34061	chr10:5726821-6225187	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
4	nsv1042286	chr10:5795129-6578445	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
5	nsv831775	chr10:5804335-6000849	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
6	nsv947730	chr10:5817688-5827238	Strong transcription Genic enhancers Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:5762600-5843400	Strong transcription	Dnd41	blood
2	chr10:5762800-5843000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr10:5768000-5849400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr10:5796000-5822400	Strong transcription	Fetal Intestine Large	intestine
5	chr10:5797400-5847400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
6	chr10:5798000-5842800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr10:5798200-5843000	Strong transcription	Monocytes-CD14+_RO01746	blood
8	chr10:5798600-5820200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr10:5798600-5842800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
10	chr10:5805000-5843200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr10:5807400-5821800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr10:5808400-5826400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr10:5808800-5825800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
14	chr10:5809000-5824400	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr10:5810400-5824800	Weak transcription	Ovary	ovary
16	chr10:5811800-5824400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr10:5812000-5823800	Weak transcription	Fetal Kidney	kidney
18	chr10:5812000-5824000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr10:5812400-5821600	Weak transcription	Brain Germinal Matrix	brain
20	chr10:5814600-5822600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr10:5816000-5820200	Strong transcription	Fetal Intestine Small	intestine
22	chr10:5817200-5831200	Weak transcription	Pancreas	Pancrea
23	chr10:5817400-5821000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr10:5817800-5821800	Weak transcription	Cortex derived primary cultured neurospheres	brain
25	chr10:5817800-5825000	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr10:5817800-5826200	Weak transcription	HMEC	breast
27	chr10:5818000-5820200	Weak transcription	HUES6 Cell Line	embryonic stem cell
28	chr10:5818000-5824600	Weak transcription	Colonic Mucosa	Colon
29	chr10:5818000-5824600	Weak transcription	Gastric	stomach
30	chr10:5818000-5826400	Weak transcription	Esophagus	oesophagus
31	chr10:5818000-5854200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr10:5818200-5819800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr10:5818200-5820200	Weak transcription	HUES64 Cell Line	embryonic stem cell
34	chr10:5818200-5820200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
35	chr10:5818200-5823600	Weak transcription	Placenta	Placenta
36	chr10:5818200-5824200	Weak transcription	H1 Cell Line	embryonic stem cell
37	chr10:5818200-5824200	Weak transcription	Fetal Brain Male	brain
38	chr10:5818200-5824800	Weak transcription	Rectal Mucosa Donor 31	rectum
39	chr10:5818400-5820400	Weak transcription	HUES48 Cell Line	embryonic stem cell
40	chr10:5818400-5820400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr10:5818400-5821600	Weak transcription	Fetal Stomach	stomach
42	chr10:5818400-5821800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr10:5818400-5821800	Weak transcription	Left Ventricle	heart
44	chr10:5818400-5821800	Weak transcription	Lung	lung
45	chr10:5818400-5822400	Weak transcription	Primary neutrophils fromperipheralblood	blood
46	chr10:5818400-5823600	Weak transcription	Primary hematopoietic stem cells	blood
47	chr10:5818400-5823800	Weak transcription	Fetal Muscle Trunk	muscle
48	chr10:5818400-5824000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
49	chr10:5818400-5824000	Weak transcription	Brain Anterior Caudate	brain
50	chr10:5818400-5824000	Weak transcription	Placenta Amnion	Placenta Amnion

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