Variant report

Variant	rs10438540
Chromosome Location	chr16:11969203-11969204
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr16:11959980..11962642-chr16:11968005..11970163,2	K562	blood:
2	chr16:11968165..11970950-chr16:11974368..11976802,2	K562	blood:

Variant related genes	Relation type
ENSG00000261560	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs16958657	1.00[JPT][hapmap]
rs57216648	0.84[AFR][1000 genomes]
rs57871000	0.84[AFR][1000 genomes]
rs7193780	1.00[ASW][hapmap];1.00[YRI][hapmap]
rs8191325	1.00[JPT][hapmap]

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	nsv1043909	chr16:11839910-12007435	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv1042660	chr16:11846873-12110435	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
3	nsv571458	chr16:11925008-12087282	Weak transcription Genic enhancers Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
4	nsv984257	chr16:11968206-11992901	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:11946200-11975600	Weak transcription	Aorta	Aorta
2	chr16:11946400-11969400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr16:11946400-11969400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr16:11946400-11969400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr16:11946400-11975600	Weak transcription	Esophagus	oesophagus
6	chr16:11946600-11970400	Weak transcription	Right Atrium	heart
7	chr16:11947000-11969400	Weak transcription	Right Ventricle	heart
8	chr16:11948800-11969400	Weak transcription	Brain Angular Gyrus	brain
9	chr16:11948800-11970200	Weak transcription	Gastric	stomach
10	chr16:11959400-11969400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr16:11960600-11969400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr16:11960600-11969600	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr16:11961200-11972200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr16:11961400-11975600	Weak transcription	Pancreas	Pancrea
15	chr16:11961600-11971600	Strong transcription	NHDF-Ad	bronchial
16	chr16:11961600-11986000	Weak transcription	Stomach Mucosa	stomach
17	chr16:11961800-11969400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
18	chr16:11961800-11972400	Strong transcription	Monocytes-CD14+_RO01746	blood
19	chr16:11961800-11991000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr16:11962000-11992200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
21	chr16:11962000-11994600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
22	chr16:11962200-11970200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
23	chr16:11962200-11992000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
24	chr16:11962400-11971800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
25	chr16:11962400-11972800	Strong transcription	Primary T helper cells PMA-I stimulated	--
26	chr16:11962400-11982600	Strong transcription	Fetal Thymus	thymus
27	chr16:11962400-11984000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr16:11962400-11990800	Strong transcription	HUES48 Cell Line	embryonic stem cell
29	chr16:11962400-11992000	Strong transcription	Primary T helper cells fromperipheralblood	blood
30	chr16:11962400-11992200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr16:11962400-11992200	Strong transcription	HUES6 Cell Line	embryonic stem cell
32	chr16:11962400-11992400	Strong transcription	HUES64 Cell Line	embryonic stem cell
33	chr16:11962400-11995000	Strong transcription	Dnd41	blood
34	chr16:11962600-11971200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr16:11962600-11985600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
36	chr16:11962600-11990600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
37	chr16:11962600-11991800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
38	chr16:11962600-12004000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr16:11963000-11971000	Strong transcription	Hela-S3	cervix
40	chr16:11963200-11970800	Weak transcription	Brain Cingulate Gyrus	brain
41	chr16:11963400-11969400	Weak transcription	H9 Cell Line	embryonic stem cell
42	chr16:11963400-11972600	Strong transcription	K562	blood
43	chr16:11963400-11975000	Weak transcription	Fetal Kidney	kidney
44	chr16:11963800-11969400	Weak transcription	Brain Anterior Caudate	brain
45	chr16:11963800-11970400	Weak transcription	Fetal Brain Female	brain
46	chr16:11963800-11974000	Weak transcription	Fetal Brain Male	brain
47	chr16:11963800-11976000	Weak transcription	HSMMtube	muscle
48	chr16:11964000-11969400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
49	chr16:11964000-11969600	Weak transcription	Spleen	Spleen
50	chr16:11964600-11970800	Weak transcription	Pancreatic Islets	Pancreatic Islet

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links