Variant report

Variant	rs6834690
Chromosome Location	chr4:104042528-104042529
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs17009213	1.00[EUR][1000 genomes]
rs17033437	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2866639	1.00[EUR][1000 genomes]
rs34685953	1.00[EUR][1000 genomes]
rs55643410	1.00[AMR][1000 genomes]
rs6812632	1.00[EUR][1000 genomes]
rs6813792	1.00[EUR][1000 genomes]
rs6821545	1.00[CEU][hapmap]
rs6831995	1.00[ASW][hapmap];0.82[LWK][hapmap];1.00[MKK][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6834354	1.00[EUR][1000 genomes]
rs6839962	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs6843807	1.00[EUR][1000 genomes]
rs6850183	1.00[EUR][1000 genomes]
rs6851455	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6853449	1.00[EUR][1000 genomes]
rs72935555	1.00[EUR][1000 genomes]
rs72935593	1.00[EUR][1000 genomes]
rs72937427	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72937428	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72937431	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72937478	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7675793	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9307278	1.00[EUR][1000 genomes]
rs9684904	1.00[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	esv2757946	chr4:103780705-104057321	Strong transcription Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	esv2759270	chr4:103780705-104057321	ZNF genes & repeats Strong transcription Weak transcription Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Genic enhancers 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	36 gene(s)	inside rSNPs	diseases
3	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
4	nsv830021	chr4:103934454-104100588	Active TSS Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
5	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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6834690	NFKB1	cis	lymphoblastoid	seeQTL

Chromatin state (count:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:104021000-104049200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr4:104021000-104049200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr4:104021000-104056000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr4:104021000-104058200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr4:104021000-104063800	Weak transcription	Fetal Stomach	stomach
6	chr4:104021000-104068400	Weak transcription	Fetal Brain Male	brain
7	chr4:104021000-104076400	Weak transcription	Fetal Brain Female	brain
8	chr4:104021000-104089600	Weak transcription	Fetal Heart	heart
9	chr4:104021200-104045800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr4:104021200-104076600	Weak transcription	Fetal Intestine Small	intestine
11	chr4:104021200-104100200	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr4:104021400-104074600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr4:104026800-104046200	Strong transcription	HUES48 Cell Line	embryonic stem cell
14	chr4:104029000-104056200	Weak transcription	Fetal Lung	lung
15	chr4:104029000-104089000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr4:104029800-104089000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr4:104030200-104063600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr4:104030200-104089600	Weak transcription	Hela-S3	cervix
19	chr4:104030400-104049400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr4:104030400-104053000	Weak transcription	Fetal Muscle Trunk	muscle
21	chr4:104030800-104055800	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr4:104031200-104047000	Weak transcription	Thymus	Thymus
23	chr4:104031200-104069000	Weak transcription	Primary B cells from cord blood	blood
24	chr4:104031400-104053000	Weak transcription	Fetal Intestine Large	intestine
25	chr4:104031400-104057600	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr4:104032000-104049200	Weak transcription	Muscle Satellite Cultured Cells	--
27	chr4:104032200-104053000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr4:104032200-104053000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr4:104032400-104049200	Weak transcription	A549	lung
30	chr4:104032400-104049200	Weak transcription	GM12878-XiMat	blood
31	chr4:104032600-104042600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr4:104032600-104049400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr4:104032600-104050200	Weak transcription	Fetal Muscle Leg	muscle
34	chr4:104033200-104043000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr4:104033200-104054200	Weak transcription	NH-A	brain
36	chr4:104034800-104045000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr4:104034800-104049400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr4:104034800-104050800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr4:104035200-104057800	Strong transcription	Monocytes-CD14+_RO01746	blood
40	chr4:104035400-104043000	Weak transcription	HMEC	breast
41	chr4:104035800-104044800	Weak transcription	Osteobl	bone
42	chr4:104036200-104050000	Weak transcription	Primary neutrophils fromperipheralblood	blood
43	chr4:104037400-104045200	Strong transcription	HUES64 Cell Line	embryonic stem cell
44	chr4:104038200-104095800	Strong transcription	Fetal Thymus	thymus
45	chr4:104039000-104045400	Strong transcription	HUES6 Cell Line	embryonic stem cell
46	chr4:104039000-104045600	Strong transcription	Primary monocytes fromperipheralblood	blood
47	chr4:104039200-104045600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
48	chr4:104039200-104058400	Weak transcription	Left Ventricle	heart
49	chr4:104039200-104077400	Strong transcription	Dnd41	blood
50	chr4:104039400-104044200	Weak transcription	Primary hematopoietic stem cells	blood

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