Variant report

Variant	rs6586870
Chromosome Location	chr8:19709775-19709776
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	chr8:19674074..19675847-chr8:19707697..19710631,2	K562	blood:
2	chr8:19674069..19678740-chr8:19703160..19710631,7	K562	blood:

Variant related genes	Relation type
ENSG00000104613	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs11204078	0.88[ASN][1000 genomes]
rs11985584	0.86[CHB][hapmap];0.93[CHD][hapmap];0.87[JPT][hapmap];0.90[ASN][1000 genomes]
rs1561749	0.90[ASN][1000 genomes]
rs34311148	0.87[ASN][1000 genomes]
rs34564004	0.96[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.90[TSI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35843228	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv890625	chr8:19368697-19799641	Strong transcription Weak transcription Enhancers Bivalent Enhancer Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	nsv610759	chr8:19561997-20068842	Enhancers Strong transcription Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6586870	INTS10	cis	cerebellum	SCAN
rs6586870	INTS10	cis	parietal	SCAN

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:19676000-19710200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr8:19677000-19710600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr8:19677200-19710400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr8:19677200-19710400	Strong transcription	Placenta	Placenta
5	chr8:19677200-19710600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
6	chr8:19677400-19710400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr8:19677400-19710800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
8	chr8:19679200-19710400	Strong transcription	Liver	Liver
9	chr8:19683600-19710200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr8:19684400-19711400	Strong transcription	A549	lung
11	chr8:19692400-19710200	Weak transcription	Colonic Mucosa	Colon
12	chr8:19692600-19712000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr8:19697200-19711800	Weak transcription	Rectal Smooth Muscle	rectum
14	chr8:19697400-19711400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr8:19700000-19714000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr8:19700200-19711400	Weak transcription	Fetal Brain Male	brain
17	chr8:19700800-19711200	Strong transcription	Fetal Stomach	stomach
18	chr8:19701800-19719400	Weak transcription	Fetal Heart	heart
19	chr8:19702000-19711400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
20	chr8:19702200-19711200	Weak transcription	HSMMtube	muscle
21	chr8:19702800-19713600	Weak transcription	Small Intestine	intestine
22	chr8:19703200-19713400	Weak transcription	Fetal Lung	lung
23	chr8:19703400-19711400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr8:19703400-19711800	Weak transcription	Brain Substantia Nigra	brain
25	chr8:19703400-19712200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
26	chr8:19703400-19713800	Weak transcription	Fetal Kidney	kidney
27	chr8:19703600-19711000	Weak transcription	Colon Smooth Muscle	Colon
28	chr8:19704600-19710000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
29	chr8:19704600-19710600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
30	chr8:19704600-19711200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr8:19704800-19710600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr8:19704800-19710600	Strong transcription	Fetal Intestine Large	intestine
33	chr8:19705000-19711400	Weak transcription	K562	blood
34	chr8:19705000-19711600	Strong transcription	Monocytes-CD14+_RO01746	blood
35	chr8:19705200-19710400	Strong transcription	Primary monocytes fromperipheralblood	blood
36	chr8:19705200-19710400	Strong transcription	Pancreas	Pancrea
37	chr8:19705400-19710600	Strong transcription	Stomach Smooth Muscle	stomach
38	chr8:19705600-19710400	Strong transcription	Aorta	Aorta
39	chr8:19705600-19711800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
40	chr8:19705600-19713200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
41	chr8:19705600-19713400	Weak transcription	Psoas Muscle	Psoas
42	chr8:19705600-19714200	Weak transcription	Rectal Mucosa Donor 31	rectum
43	chr8:19705800-19711200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr8:19705800-19711200	Weak transcription	NH-A	brain
45	chr8:19706000-19710400	Strong transcription	Brain Germinal Matrix	brain
46	chr8:19706000-19710800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr8:19706000-19714800	Weak transcription	HMEC	breast
48	chr8:19706200-19713400	Weak transcription	Skeletal Muscle Female	skeletal muscle
49	chr8:19706400-19709800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr8:19706600-19710200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links