Variant report

Variant	rs6561439
Chromosome Location	chr13:48729839-48729840
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 5 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:1)

rs_ID	r²[population]
rs7337739	0.88[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832601	chr13:48569952-48735939	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv541766	chr13:48703229-48857639	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv1047140	chr13:48703732-48765860	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv541767	chr13:48703732-48765860	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:48717400-48733200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr13:48722400-48730600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
3	chr13:48722600-48730000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
4	chr13:48723200-48730600	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr13:48723800-48730400	Enhancers	Primary T helper cells fromperipheralblood	blood
6	chr13:48724200-48738200	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr13:48726200-48730000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
8	chr13:48726200-48731600	Enhancers	Placenta	Placenta
9	chr13:48726400-48730000	Weak transcription	GM12878-XiMat	blood
10	chr13:48726400-48730200	Enhancers	Primary T helper naive cells from peripheral blood	blood
11	chr13:48726400-48730400	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr13:48726400-48733600	Weak transcription	Esophagus	oesophagus
13	chr13:48726400-48735400	Weak transcription	Lung	lung
14	chr13:48726600-48731600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr13:48726600-48732000	Weak transcription	Duodenum Mucosa	Duodenum
16	chr13:48726800-48730000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr13:48726800-48730000	Weak transcription	Primary B cells from peripheral blood	blood
18	chr13:48727400-48730400	Enhancers	NHEK	skin
19	chr13:48727600-48731200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr13:48728000-48730000	Weak transcription	Stomach Mucosa	stomach
21	chr13:48728200-48731200	Enhancers	Primary T killer memory cells from peripheral blood	blood
22	chr13:48728400-48730200	Enhancers	Primary T cells fromperipheralblood	blood
23	chr13:48728400-48730400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr13:48728400-48731200	Enhancers	HMEC	breast
25	chr13:48728400-48731600	Enhancers	Primary T cells from cord blood	blood
26	chr13:48728600-48731000	Enhancers	Primary hematopoietic stem cells short term culture	blood
27	chr13:48728600-48733600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr13:48728600-48735400	Weak transcription	Duodenum Smooth Muscle	Duodenum
29	chr13:48728800-48730400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr13:48728800-48730800	Enhancers	ES-I3 Cell Line	embryonic stem cell
31	chr13:48728800-48730800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
32	chr13:48728800-48731000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr13:48728800-48731000	Enhancers	Primary hematopoietic stem cells	blood
34	chr13:48728800-48731000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr13:48728800-48731000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr13:48728800-48731000	Enhancers	Adipose Nuclei	Adipose
37	chr13:48728800-48731200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
38	chr13:48728800-48731200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr13:48729000-48730200	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
40	chr13:48729000-48730800	Enhancers	Small Intestine	intestine
41	chr13:48729000-48731200	Enhancers	Hela-S3	cervix
42	chr13:48729200-48730600	Enhancers	HSMM	muscle
43	chr13:48729200-48730800	Enhancers	HepG2	liver
44	chr13:48729200-48733000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr13:48729400-48730000	Enhancers	Dnd41	blood
46	chr13:48729400-48730400	Weak transcription	HUES6 Cell Line	embryonic stem cell
47	chr13:48729400-48730400	Weak transcription	HUES64 Cell Line	embryonic stem cell
48	chr13:48729400-48730400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr13:48729400-48730400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
50	chr13:48729400-48730400	Enhancers	A549	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links