Variant report

Variant	rs11879826
Chromosome Location	chr19:42879382-42879383
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:42877710..42882925-chr19:42884420..42888840,5	K562	blood:

Extended variants
information (count: 22 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10401235	0.84[ASN][1000 genomes]
rs10408368	0.93[ASN][1000 genomes]
rs11880014	1.00[ASN][1000 genomes]
rs11882625	0.82[ASN][1000 genomes]
rs13345314	0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs13346080	1.00[ASN][1000 genomes]
rs13346092	1.00[ASN][1000 genomes]
rs13347104	1.00[ASN][1000 genomes]
rs2304210	1.00[ASN][1000 genomes]
rs28412914	0.89[ASN][1000 genomes]
rs28480505	1.00[ASN][1000 genomes]
rs3810147	0.93[ASN][1000 genomes]
rs7257910	1.00[ASN][1000 genomes]
rs73556315	0.90[ASN][1000 genomes]
rs8104272	1.00[ASN][1000 genomes]
rs8108964	0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv522854	chr19:42120283-42931004	Weak transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	104 gene(s)	inside rSNPs	diseases
2	nsv520239	chr19:42357455-42931004	Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Strong transcription Genic enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	92 gene(s)	inside rSNPs	diseases
3	nsv911782	chr19:42514712-42931004	Bivalent/Poised TSS Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
4	nsv526186	chr19:42676481-43203507	Enhancers Bivalent Enhancer Genic enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	62 gene(s)	inside rSNPs	diseases
5	esv2422471	chr19:42733141-43669485	Genic enhancers Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Weak transcription Strong transcription 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 miRNA	70 gene(s)	inside rSNPs	diseases
6	nsv911785	chr19:42741124-42917545	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	46 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:42830800-42884200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
2	chr19:42831600-42882600	Weak transcription	Primary T helper cells PMA-I stimulated	--
3	chr19:42868400-42881400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
4	chr19:42868400-42882400	Weak transcription	Muscle Satellite Cultured Cells	--
5	chr19:42868600-42882600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr19:42868800-42880800	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr19:42868800-42882000	Strong transcription	Fetal Stomach	stomach
8	chr19:42869000-42883400	Weak transcription	Primary T cells from cord blood	blood
9	chr19:42869000-42884400	Weak transcription	Colonic Mucosa	Colon
10	chr19:42869600-42880200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr19:42869600-42890800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr19:42870800-42881400	Strong transcription	Brain Anterior Caudate	brain
13	chr19:42871400-42890800	Weak transcription	Psoas Muscle	Psoas
14	chr19:42871800-42881400	Strong transcription	Fetal Brain Female	brain
15	chr19:42872000-42884800	Weak transcription	A549	lung
16	chr19:42872200-42883800	Weak transcription	Fetal Brain Male	brain
17	chr19:42872400-42881400	Strong transcription	Ovary	ovary
18	chr19:42873600-42880400	Strong transcription	Brain Inferior Temporal Lobe	brain
19	chr19:42873800-42879800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr19:42874400-42891000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr19:42874800-42881400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr19:42874800-42881600	Weak transcription	Primary neutrophils fromperipheralblood	blood
23	chr19:42874800-42884400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
24	chr19:42875000-42881400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr19:42875000-42881400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr19:42875000-42881400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr19:42875000-42882200	Weak transcription	Primary hematopoietic stem cells	blood
28	chr19:42875200-42881600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr19:42875200-42881800	Weak transcription	HSMM	muscle
30	chr19:42875200-42882800	Weak transcription	GM12878-XiMat	blood
31	chr19:42875600-42881400	Strong transcription	Fetal Muscle Trunk	muscle
32	chr19:42875600-42881800	Strong transcription	Fetal Intestine Small	intestine
33	chr19:42875800-42880000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
34	chr19:42875800-42880200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
35	chr19:42875800-42886000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
36	chr19:42876000-42880000	Weak transcription	Placenta	Placenta
37	chr19:42876000-42880400	Strong transcription	HUES48 Cell Line	embryonic stem cell
38	chr19:42876000-42882000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
39	chr19:42876000-42884000	Weak transcription	Brain Substantia Nigra	brain
40	chr19:42876200-42883800	Weak transcription	Colon Smooth Muscle	Colon
41	chr19:42876400-42881200	Weak transcription	HSMMtube	muscle
42	chr19:42876800-42883000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr19:42877200-42890800	Weak transcription	Primary B cells from cord blood	blood
44	chr19:42877200-42890800	Weak transcription	Primary B cells from peripheral blood	blood
45	chr19:42877400-42881200	Strong transcription	Duodenum Smooth Muscle	Duodenum
46	chr19:42877600-42879600	Strong transcription	Fetal Lung	lung
47	chr19:42877800-42880800	Strong transcription	H1 Cell Line	embryonic stem cell
48	chr19:42877800-42881400	Strong transcription	Fetal Muscle Leg	muscle
49	chr19:42878000-42879400	Strong transcription	HUES64 Cell Line	embryonic stem cell
50	chr19:42878000-42880000	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links