Variant report

Variant	rs10098405
Chromosome Location	chr8:62569552-62569553
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr8:62563951..62566121-chr8:62567672..62569937,2	K562	blood:
2	chr8:62560140..62569925-chr8:62619825..62628019,19	K562	blood:
3	chr8:62566089..62569797-chr8:62569988..62576057,8	K562	blood:
4	chr8:62562806..62567589-chr8:62567672..62571584,5	K562	blood:
5	chr8:62568893..62570509-chr8:62619376..62620979,2	K562	blood:
6	chr8:62567262..62573065-chr8:62621554..62624953,7	K562	blood:

Variant related genes	Relation type
ENSG00000198363	Chromatin interaction
ENSG00000264408	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10087488	1.00[AMR][1000 genomes]
rs10092232	1.00[AMR][1000 genomes]
rs10094823	1.00[AMR][1000 genomes]
rs10095066	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs10096419	1.00[AMR][1000 genomes]
rs10096503	1.00[AMR][1000 genomes]
rs10099005	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10099587	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10100762	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10101335	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs10104313	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10104459	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10108389	1.00[AMR][1000 genomes]
rs10113315	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28374092	1.00[AMR][1000 genomes]
rs28408834	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28460340	1.00[AMR][1000 genomes]
rs28491327	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28550168	1.00[AMR][1000 genomes]
rs28562585	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28582737	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28664022	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28667387	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28668164	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28670423	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28723591	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28831834	1.00[AMR][1000 genomes]
rs9298054	1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024432	chr8:62086247-62898782	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv1027742	chr8:62206883-62613533	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv539633	chr8:62206883-62613533	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv1021377	chr8:62214279-62596721	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
5	nsv539634	chr8:62214279-62596721	ZNF genes & repeats Genic enhancers Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
6	nsv932198	chr8:62336705-62914562	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
7	nsv890950	chr8:62517963-62617027	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
8	esv2761430	chr8:62517980-62873803	Weak transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS 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 miRNA target site	21 gene(s)	inside rSNPs	diseases
9	nsv1015216	chr8:62517980-62873803	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:62513000-62594800	Weak transcription	Brain Anterior Caudate	brain
2	chr8:62518000-62597600	Weak transcription	Small Intestine	intestine
3	chr8:62534000-62612400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr8:62542800-62600000	Weak transcription	Psoas Muscle	Psoas
5	chr8:62544600-62573800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr8:62550400-62571400	Weak transcription	Right Ventricle	heart
7	chr8:62550400-62601400	Weak transcription	Colonic Mucosa	Colon
8	chr8:62550600-62585800	Weak transcription	Esophagus	oesophagus
9	chr8:62550600-62601000	Weak transcription	Colon Smooth Muscle	Colon
10	chr8:62552400-62590600	Weak transcription	Primary T cells from cord blood	blood
11	chr8:62553000-62588400	Weak transcription	Spleen	Spleen
12	chr8:62553000-62603800	Weak transcription	Pancreas	Pancrea
13	chr8:62553200-62595200	Weak transcription	Fetal Lung	lung
14	chr8:62553200-62603800	Weak transcription	Gastric	stomach
15	chr8:62553400-62600000	Weak transcription	Rectal Smooth Muscle	rectum
16	chr8:62553600-62569800	Weak transcription	Primary hematopoietic stem cells	blood
17	chr8:62553600-62597800	Weak transcription	Fetal Intestine Large	intestine
18	chr8:62554800-62588400	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr8:62555000-62581400	Weak transcription	Rectal Mucosa Donor 31	rectum
20	chr8:62555000-62601200	Weak transcription	Brain Hippocampus Middle	brain
21	chr8:62556800-62594600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr8:62557000-62573600	Weak transcription	HepG2	liver
23	chr8:62557000-62584400	Weak transcription	Stomach Smooth Muscle	stomach
24	chr8:62557200-62577000	Weak transcription	Left Ventricle	heart
25	chr8:62558000-62573800	Weak transcription	Right Atrium	heart
26	chr8:62558600-62585600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr8:62558600-62590400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr8:62558800-62585600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr8:62558800-62602200	Weak transcription	Aorta	Aorta
30	chr8:62558800-62602600	Weak transcription	Fetal Intestine Small	intestine
31	chr8:62559600-62575600	Weak transcription	Fetal Muscle Trunk	muscle
32	chr8:62559600-62585600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr8:62559600-62585800	Weak transcription	Lung	lung
34	chr8:62559600-62588200	Weak transcription	HSMMtube	muscle
35	chr8:62559600-62594600	Weak transcription	Rectal Mucosa Donor 29	rectum
36	chr8:62559800-62577600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr8:62560000-62573800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
38	chr8:62560800-62569800	Genic enhancers	A549	lung
39	chr8:62561000-62584400	Weak transcription	Skeletal Muscle Female	skeletal muscle
40	chr8:62561000-62598000	Weak transcription	Placenta	Placenta
41	chr8:62561000-62602200	Weak transcription	Sigmoid Colon	Sigmoid Colon
42	chr8:62563400-62594800	Weak transcription	Duodenum Mucosa	Duodenum
43	chr8:62563400-62603000	Weak transcription	Fetal Stomach	stomach
44	chr8:62563800-62590400	Weak transcription	Cortex derived primary cultured neurospheres	brain
45	chr8:62564200-62581400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
46	chr8:62565000-62569600	Weak transcription	Adipose Nuclei	Adipose
47	chr8:62566200-62595200	Weak transcription	Duodenum Smooth Muscle	Duodenum
48	chr8:62566200-62602200	Weak transcription	Ovary	ovary
49	chr8:62566800-62569600	Enhancers	Primary neutrophils fromperipheralblood	blood
50	chr8:62567200-62570000	Weak transcription	NHDF-Ad	bronchial

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links