Variant report

Variant	rs6913550
Chromosome Location	chr6:26540683-26540684
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:26537837..26539714-chr6:26539743..26541511,2	MCF-7	breast:
2	chr6:26284431..26286748-chr6:26538592..26541230,2	K562	blood:
3	chr6:26188869..26191553-chr6:26538652..26541093,2	K562	blood:
4	chr6:26535400..26541597-chr6:26593643..26598951,8	K562	blood:
5	chr6:26216321..26218789-chr6:26539322..26541889,2	K562	blood:

Variant related genes	Relation type
ENSG00000168274	Chromatin interaction
ENSG00000146109	Chromatin interaction
ENSG00000187990	Chromatin interaction
ENSG00000182952	Chromatin interaction
ENSG00000158406	Chromatin interaction
ENSG00000188987	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs1535275	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4711112	0.80[EUR][1000 genomes]
rs6456729	0.81[EUR][1000 genomes]
rs6906521	0.80[EUR][1000 genomes]
rs6929908	0.94[EUR][1000 genomes]
rs7750131	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7765920	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9295696	0.93[EUR][1000 genomes]
rs9357008	0.80[EUR][1000 genomes]
rs9379892	0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029920	chr6:25638507-26585842	Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
2	nsv538162	chr6:25638507-26585842	Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
3	nsv482407	chr6:26369320-26550148	Active TSS Strong transcription Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats 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	62 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:26539200-26545400	Weak transcription	Gastric	stomach
2	chr6:26539200-26550600	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr6:26539400-26542800	Weak transcription	Liver	Liver
4	chr6:26539400-26546000	Weak transcription	Ovary	ovary
5	chr6:26539400-26550600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:26539600-26540800	Weak transcription	Aorta	Aorta
7	chr6:26539600-26541200	Enhancers	Primary T helper naive cells from peripheral blood	blood
8	chr6:26539600-26541400	Enhancers	Primary T killer memory cells from peripheral blood	blood
9	chr6:26539600-26541800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
10	chr6:26539600-26542000	Weak transcription	NH-A	brain
11	chr6:26539600-26542200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
12	chr6:26539600-26542400	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr6:26539600-26542600	Weak transcription	Primary neutrophils fromperipheralblood	blood
14	chr6:26539600-26542800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
15	chr6:26539600-26543000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr6:26539600-26543200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
17	chr6:26539600-26544600	Weak transcription	Primary hematopoietic stem cells	blood
18	chr6:26539600-26544800	Weak transcription	Psoas Muscle	Psoas
19	chr6:26539600-26544800	Weak transcription	HSMMtube	muscle
20	chr6:26539600-26545200	Weak transcription	Spleen	Spleen
21	chr6:26539600-26545400	Weak transcription	HUVEC	blood vessel
22	chr6:26539600-26549800	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr6:26539600-26550400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
24	chr6:26539600-26550400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr6:26539600-26550400	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr6:26539600-26550600	Weak transcription	Pancreatic Islets	Pancreatic Islet
27	chr6:26539600-26553000	Weak transcription	Fetal Heart	heart
28	chr6:26539800-26540800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr6:26539800-26541800	Genic enhancers	Primary T cells fromperipheralblood	blood
30	chr6:26539800-26542400	Weak transcription	Placenta	Placenta
31	chr6:26539800-26543000	Weak transcription	Primary monocytes fromperipheralblood	blood
32	chr6:26539800-26544800	Weak transcription	Left Ventricle	heart
33	chr6:26539800-26544800	Weak transcription	Rectal Mucosa Donor 31	rectum
34	chr6:26539800-26545200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr6:26539800-26545200	Weak transcription	Fetal Muscle Trunk	muscle
36	chr6:26539800-26550400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
37	chr6:26539800-26550400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr6:26539800-26550800	Weak transcription	Pancreas	Pancrea
39	chr6:26540000-26541200	Transcr. at gene 5' and 3'	GM12878-XiMat	blood
40	chr6:26540000-26544800	Weak transcription	Skeletal Muscle Male	skeletal muscle
41	chr6:26540000-26545200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr6:26540000-26545400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr6:26540000-26545400	Weak transcription	Fetal Muscle Leg	muscle
44	chr6:26540000-26550800	Weak transcription	Lung	lung
45	chr6:26540200-26540800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
46	chr6:26540200-26541200	Strong transcription	Fetal Thymus	thymus
47	chr6:26540200-26541200	Genic enhancers	A549	lung
48	chr6:26540200-26541200	Genic enhancers	NHDF-Ad	bronchial
49	chr6:26540200-26541600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
50	chr6:26540200-26541600	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links