Variant report

Variant	rs13109842
Chromosome Location	chr4:26333167-26333168
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:26323720..26325318-chr4:26331825..26334750,2	K562	blood:
2	chr4:26331672..26333211-chr4:26335097..26337587,2	K562	blood:
3	chr4:26320966..26322729-chr4:26331935..26333444,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168214	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs13128399	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13135696	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13144326	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13148482	0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17639483	0.89[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];0.83[ASN][1000 genomes]
rs1877207	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28465688	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34388070	0.82[ASN][1000 genomes]
rs35323831	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3762930	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4289434	0.89[ASW][hapmap];1.00[YRI][hapmap]
rs4692523	0.81[EUR][1000 genomes]
rs56352330	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829889	chr4:26169954-26338313	Active TSS Flanking Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:106 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:26323800-26374400	Weak transcription	Lung	lung
2	chr4:26324600-26333200	Weak transcription	Thymus	Thymus
3	chr4:26325000-26334200	Weak transcription	Fetal Intestine Small	intestine
4	chr4:26325000-26338000	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr4:26325000-26374200	Weak transcription	Fetal Intestine Large	intestine
6	chr4:26325600-26343600	Weak transcription	Primary T cells from cord blood	blood
7	chr4:26325800-26333200	Weak transcription	Primary hematopoietic stem cells	blood
8	chr4:26325800-26343000	Weak transcription	Fetal Stomach	stomach
9	chr4:26326000-26341600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr4:26326000-26344200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr4:26326600-26339600	Weak transcription	Fetal Muscle Trunk	muscle
12	chr4:26328800-26343600	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr4:26329000-26335200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr4:26329000-26341800	Weak transcription	GM12878-XiMat	blood
15	chr4:26329000-26343200	Weak transcription	HMEC	breast
16	chr4:26329000-26343400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr4:26329400-26342800	Weak transcription	NHEK	skin
18	chr4:26330600-26342600	Weak transcription	NHLF	lung
19	chr4:26331600-26333400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr4:26331600-26334000	Enhancers	HUES64 Cell Line	embryonic stem cell
21	chr4:26331800-26333600	Enhancers	Primary T helper cells PMA-I stimulated	--
22	chr4:26331800-26333800	Enhancers	iPS-18 Cell Line	embryonic stem cell
23	chr4:26331800-26333800	Enhancers	Brain Substantia Nigra	brain
24	chr4:26331800-26333800	Enhancers	Monocytes-CD14+_RO01746	blood
25	chr4:26331800-26333800	Enhancers	NHDF-Ad	bronchial
26	chr4:26331800-26334000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
27	chr4:26331800-26334000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr4:26332000-26333200	Enhancers	NH-A	brain
29	chr4:26332000-26333200	Enhancers	Osteobl	bone
30	chr4:26332000-26333400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
31	chr4:26332000-26333600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
32	chr4:26332000-26333600	Enhancers	Brain Germinal Matrix	brain
33	chr4:26332000-26333600	Enhancers	Fetal Lung	lung
34	chr4:26332000-26333800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
35	chr4:26332000-26333800	Enhancers	HepG2	liver
36	chr4:26332200-26333200	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
37	chr4:26332200-26333400	Enhancers	H1 Cell Line	embryonic stem cell
38	chr4:26332200-26333400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
39	chr4:26332200-26333400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
40	chr4:26332200-26333400	Enhancers	Fetal Brain Male	brain
41	chr4:26332200-26333400	Enhancers	HSMMtube	muscle
42	chr4:26332200-26333400	Enhancers	K562	blood
43	chr4:26332200-26333600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr4:26332200-26333600	Enhancers	Primary monocytes fromperipheralblood	blood
45	chr4:26332200-26333600	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
46	chr4:26332200-26333600	Enhancers	Primary T helper cells fromperipheralblood	blood
47	chr4:26332200-26333600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
48	chr4:26332200-26333600	Enhancers	Adipose Nuclei	Adipose
49	chr4:26332200-26333600	Enhancers	Rectal Smooth Muscle	rectum
50	chr4:26332200-26333600	Enhancers	Skeletal Muscle Male	skeletal muscle

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