Variant report

Variant	rs2561429
Chromosome Location	chr6:39164739-39164740
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:39163723..39165690-chr6:39268999..39271055,3	MCF-7	breast:
2	chr6:39160875..39164831-chr6:39173251..39175892,4	K562	blood:
3	chr6:39162719..39164812-chr6:39191321..39194021,2	K562	blood:
4	chr6:39158722..39165685-chr6:39165726..39171665,10	K562	blood:
5	chr6:39155353..39158584-chr6:39158946..39166191,7	K562	blood:
6	chr6:39155493..39158185-chr6:39159701..39165340,4	K562	blood:
7	chr6:39159091..39165465-chr6:39185781..39190794,6	K562	blood:
8	chr6:39162911..39167327-chr6:39168116..39172779,6	MCF-7	breast:
9	chr6:39164203..39166595-chr6:39175692..39177360,2	K562	blood:
10	chr6:39161548..39165736-chr6:39172380..39175639,5	K562	blood:

No data

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs1593917	0.82[YRI][hapmap]
rs2561423	0.92[AFR][1000 genomes]
rs2815078	0.85[YRI][hapmap]
rs2815084	0.85[YRI][hapmap]
rs2815098	1.00[AFR][1000 genomes]
rs2815099	1.00[YRI][hapmap];1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830644	chr6:39116530-39325980	Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv1022974	chr6:39120271-39277553	Flanking Active TSS Enhancers Weak transcription Active TSS 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 miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:39149000-39168000	Weak transcription	Fetal Kidney	kidney
2	chr6:39150600-39193800	Genic enhancers	Fetal Intestine Small	intestine
3	chr6:39151000-39165200	Strong transcription	H9 Cell Line	embryonic stem cell
4	chr6:39155400-39172400	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr6:39155600-39166600	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr6:39156400-39177200	Weak transcription	Primary T cells from cord blood	blood
7	chr6:39156600-39169600	Weak transcription	A549	lung
8	chr6:39156800-39165200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
9	chr6:39156800-39166000	Weak transcription	Small Intestine	intestine
10	chr6:39156800-39166200	Weak transcription	Primary hematopoietic stem cells	blood
11	chr6:39156800-39171200	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr6:39156800-39193400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr6:39157000-39164800	Weak transcription	Primary T helper cells PMA-I stimulated	--
14	chr6:39157400-39166800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr6:39158000-39165000	Strong transcription	Fetal Thymus	thymus
16	chr6:39161000-39165400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr6:39161800-39168600	Genic enhancers	K562	blood
18	chr6:39162200-39166000	Strong transcription	Liver	Liver
19	chr6:39162200-39170200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr6:39162600-39165200	Weak transcription	Primary monocytes fromperipheralblood	blood
21	chr6:39163200-39167400	Weak transcription	Fetal Muscle Trunk	muscle
22	chr6:39163400-39165200	Weak transcription	Monocytes-CD14+_RO01746	blood
23	chr6:39163400-39166800	Weak transcription	Lung	lung
24	chr6:39163600-39165000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr6:39163600-39165400	Strong transcription	Fetal Stomach	stomach
26	chr6:39163600-39167600	Weak transcription	Fetal Lung	lung
27	chr6:39163600-39168400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
28	chr6:39163800-39164800	Genic enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr6:39163800-39165200	Weak transcription	Primary neutrophils fromperipheralblood	blood
30	chr6:39163800-39165400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr6:39163800-39165600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
32	chr6:39163800-39167200	Weak transcription	Esophagus	oesophagus
33	chr6:39163800-39170000	Weak transcription	Ovary	ovary
34	chr6:39163800-39170000	Enhancers	Pancreas	Pancrea
35	chr6:39163800-39171200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr6:39163800-39174000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr6:39163800-39192800	Weak transcription	Rectal Smooth Muscle	rectum
38	chr6:39164000-39164800	Enhancers	Spleen	Spleen
39	chr6:39164000-39165400	Enhancers	Colonic Mucosa	Colon
40	chr6:39164000-39167400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
41	chr6:39164000-39168000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
42	chr6:39164000-39171000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
43	chr6:39164000-39171200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
44	chr6:39164200-39164800	Enhancers	Fetal Intestine Large	intestine
45	chr6:39164200-39164800	Enhancers	Hela-S3	cervix
46	chr6:39164200-39166400	Enhancers	GM12878-XiMat	blood
47	chr6:39164200-39166600	Enhancers	Sigmoid Colon	Sigmoid Colon
48	chr6:39164200-39167000	Enhancers	Primary B cells from peripheral blood	blood
49	chr6:39164200-39168600	Enhancers	Rectal Mucosa Donor 29	rectum
50	chr6:39164200-39168800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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