Variant report

Variant	rs29270
Chromosome Location	chr6:29617400-29617401
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:29598640..29604637-chr6:29614654..29620933,9	K562	blood:
2	chr6:29616642..29621245-chr6:29621568..29627231,6	K562	blood:
3	chr6:29615912..29617460-chr6:29617899..29619662,2	MCF-7	breast:
4	chr6:29593197..29596046-chr6:29616000..29618979,4	K562	blood:
5	chr6:29598560..29601918-chr6:29614006..29619393,6	K562	blood:
6	chr6:29615212..29617400-chr6:29662195..29664604,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000204681	Chromatin interaction
ENSG00000235238	Chromatin interaction
ENSG00000204655	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs28454267	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs425997	0.88[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs56918232	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs57245255	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57637386	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58349531	0.86[ASN][1000 genomes]
rs6911622	0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6934884	0.93[ASN][1000 genomes]
rs73404770	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73404772	0.93[ASN][1000 genomes]
rs73406513	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73406600	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73410967	0.92[EUR][1000 genomes];0.93[ASN][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	esv2758039	chr6:29469101-29672665	Flanking Active TSS Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	esv2759411	chr6:29469101-29672665	Active TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv527037	chr6:29615822-29624112	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:150 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:29610600-29617400	Weak transcription	K562	blood
2	chr6:29615800-29617400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr6:29616200-29617400	Enhancers	iPS-20b Cell Line	embryonic stem cell
4	chr6:29616400-29618600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
5	chr6:29616600-29617400	Enhancers	H1 Cell Line	embryonic stem cell
6	chr6:29616600-29617400	Enhancers	HUES48 Cell Line	embryonic stem cell
7	chr6:29616600-29617400	Enhancers	HUES6 Cell Line	embryonic stem cell
8	chr6:29616600-29617400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr6:29616800-29617400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
10	chr6:29616800-29618200	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
11	chr6:29617000-29617400	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
12	chr6:29617000-29617600	Active TSS	Skeletal Muscle Female	skeletal muscle
13	chr6:29617200-29617400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr6:29617200-29617400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr6:29617200-29617400	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr6:29617200-29617400	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
17	chr6:29617200-29617400	Flanking Active TSS	Primary T cells from cord blood	blood
18	chr6:29617200-29617400	Flanking Active TSS	Primary T cells fromperipheralblood	blood
19	chr6:29617200-29617400	Flanking Active TSS	Primary hematopoietic stem cells	blood
20	chr6:29617200-29617400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
21	chr6:29617200-29617400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
22	chr6:29617200-29617400	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
23	chr6:29617200-29617400	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr6:29617200-29617400	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
25	chr6:29617200-29617400	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
26	chr6:29617200-29617400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr6:29617200-29617400	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
28	chr6:29617200-29617400	Enhancers	Brain Angular Gyrus	brain
29	chr6:29617200-29617400	Enhancers	Brain Inferior Temporal Lobe	brain
30	chr6:29617200-29617400	Active TSS	Fetal Muscle Leg	muscle
31	chr6:29617200-29617400	Active TSS	Fetal Stomach	stomach
32	chr6:29617200-29617400	Active TSS	Fetal Thymus	thymus
33	chr6:29617200-29617400	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
34	chr6:29617200-29617400	Enhancers	Hela-S3	cervix
35	chr6:29617200-29617400	Active TSS	HUVEC	blood vessel
36	chr6:29617200-29617400	Flanking Active TSS	Osteobl	bone
37	chr6:29617200-29617600	Flanking Active TSS	Primary B cells from cord blood	blood
38	chr6:29617200-29617600	Flanking Active TSS	Primary B cells from peripheral blood	blood
39	chr6:29617200-29617600	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
40	chr6:29617200-29617600	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
41	chr6:29617200-29617600	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
42	chr6:29617200-29617600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr6:29617200-29617600	Active TSS	Muscle Satellite Cultured Cells	--
44	chr6:29617200-29617600	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr6:29617200-29617600	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr6:29617200-29617600	Active TSS	Adipose Nuclei	Adipose
47	chr6:29617200-29617600	Flanking Active TSS	Brain Hippocampus Middle	brain
48	chr6:29617200-29617600	Active TSS	Fetal Adrenal Gland	Adrenal Gland
49	chr6:29617200-29617600	Active TSS	Fetal Intestine Large	intestine
50	chr6:29617200-29617600	Active TSS	Right Atrium	heart

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