Variant report

Variant	rs6839962
Chromosome Location	chr4:104106248-104106249
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:104105024..104107868-chr4:104114811..104117329,2	K562	blood:
2	chr4:104101038..104102801-chr4:104105237..104108492,3	K562	blood:
3	chr4:104099499..104103338-chr4:104104534..104108261,4	K562	blood:
4	chr4:104104486..104106664-chr4:104111970..104114594,2	K562	blood:

Variant related genes	Relation type
ENSG00000138778	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs17033437	1.00[CEU][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2866639	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6812632	1.00[EUR][1000 genomes]
rs6813792	1.00[EUR][1000 genomes]
rs6821545	1.00[CEU][hapmap]
rs6831995	1.00[EUR][1000 genomes]
rs6834354	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6834690	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs6850183	1.00[EUR][1000 genomes]
rs6851455	1.00[EUR][1000 genomes]
rs72937427	1.00[EUR][1000 genomes]
rs72937428	1.00[EUR][1000 genomes]
rs72937431	1.00[EUR][1000 genomes]
rs72937478	1.00[EUR][1000 genomes]
rs7675793	1.00[EUR][1000 genomes]
rs9684904	1.00[EUR][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	esv3429917	chr4:103915319-104207455	ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv1015023	chr4:104039145-104565217	Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv830022	chr4:104087199-104257784	Flanking Active TSS Weak transcription Bivalent Enhancer Strong transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:80 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:104058200-104118400	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr4:104065000-104113200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr4:104073600-104118400	Weak transcription	Fetal Kidney	kidney
4	chr4:104078400-104108400	Strong transcription	Dnd41	blood
5	chr4:104088600-104109000	Strong transcription	HUES6 Cell Line	embryonic stem cell
6	chr4:104089800-104114800	Weak transcription	Placenta	Placenta
7	chr4:104089800-104118200	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr4:104089800-104119000	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr4:104090000-104118000	Weak transcription	Fetal Stomach	stomach
10	chr4:104090000-104118600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr4:104090000-104119000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr4:104090200-104107400	Weak transcription	Primary B cells from cord blood	blood
13	chr4:104090200-104118200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr4:104090200-104118200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr4:104090200-104118200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr4:104090200-104118200	Weak transcription	Fetal Intestine Small	intestine
17	chr4:104090400-104118200	Weak transcription	Fetal Brain Male	brain
18	chr4:104090600-104107000	Weak transcription	Hela-S3	cervix
19	chr4:104090600-104109600	Weak transcription	Primary T cells from cord blood	blood
20	chr4:104090600-104117600	Weak transcription	Fetal Heart	heart
21	chr4:104090800-104118200	Weak transcription	Duodenum Mucosa	Duodenum
22	chr4:104091600-104108400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr4:104092000-104108400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr4:104093600-104108400	Strong transcription	HUES64 Cell Line	embryonic stem cell
25	chr4:104093600-104108400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr4:104094000-104108200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
27	chr4:104094000-104108400	Strong transcription	HUES48 Cell Line	embryonic stem cell
28	chr4:104094200-104108200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
29	chr4:104094400-104108200	Strong transcription	Primary monocytes fromperipheralblood	blood
30	chr4:104094600-104108400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
31	chr4:104094800-104108200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr4:104095200-104118800	Weak transcription	Adipose Nuclei	Adipose
33	chr4:104096600-104108400	Strong transcription	Fetal Thymus	thymus
34	chr4:104096600-104108400	Strong transcription	Monocytes-CD14+_RO01746	blood
35	chr4:104097000-104119000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
36	chr4:104097800-104108400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr4:104098200-104108200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr4:104098400-104108400	Strong transcription	HMEC	breast
39	chr4:104099000-104118200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
40	chr4:104099200-104118200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr4:104099400-104118200	Weak transcription	Fetal Brain Female	brain
42	chr4:104099600-104118200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
43	chr4:104100000-104108200	Strong transcription	H1 Cell Line	embryonic stem cell
44	chr4:104100400-104113000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr4:104100400-104118200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr4:104100600-104113000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
47	chr4:104100800-104118400	Weak transcription	Rectal Mucosa Donor 29	rectum
48	chr4:104101000-104107200	Weak transcription	A549	lung
49	chr4:104101000-104107400	Weak transcription	Fetal Muscle Trunk	muscle
50	chr4:104101000-104108800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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