Variant report

Variant	rs10245155
Chromosome Location	chr7:102968491-102968492
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:102967942..102969803-chr7:102985460..102987931,2	MCF-7	breast:
2	chr7:102956400..102958547-chr7:102967575..102970199,2	K562	blood:
3	chr7:102937879..102939433-chr7:102968004..102970616,2	K562	blood:
4	chr7:102958667..102960862-chr7:102967082..102969765,2	K562	blood:
5	chr7:102950792..102953442-chr7:102967992..102970939,2	K562	blood:

Variant related genes	Relation type
ENSG00000105819	Chromatin interaction
ENSG00000105821	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10266523	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10271758	0.85[EUR][1000 genomes]
rs11978339	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17136728	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17680523	0.93[ASN][1000 genomes]
rs2878	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3087615	0.90[ASN][1000 genomes]
rs35399723	0.97[ASN][1000 genomes]
rs4729911	0.97[ASN][1000 genomes]
rs62481648	0.83[EUR][1000 genomes]
rs62481654	0.81[EUR][1000 genomes]
rs62481655	0.89[EUR][1000 genomes]
rs62482370	0.82[ASN][1000 genomes]
rs62482371	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62482394	1.00[ASN][1000 genomes]
rs62482396	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62482397	1.00[ASN][1000 genomes]
rs62482398	1.00[ASN][1000 genomes]
rs62482399	1.00[ASN][1000 genomes]
rs62482403	1.00[ASN][1000 genomes]
rs6971734	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6972190	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73175837	1.00[ASN][1000 genomes]
rs7777392	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7810558	0.89[AMR][1000 genomes];0.82[ASN][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	nsv868996	chr7:102332827-102991361	ZNF genes & repeats Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
2	nsv1030446	chr7:102932689-103221638	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv491911	chr7:102967150-103403622	Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10245155	RP11-401L13.5	cis	Thyroid	GTEx

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:102938600-102984200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr7:102939000-102969200	Strong transcription	Fetal Muscle Trunk	muscle
3	chr7:102939200-102972400	Strong transcription	Fetal Thymus	thymus
4	chr7:102939400-102969800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
5	chr7:102939600-102968600	Strong transcription	Duodenum Smooth Muscle	Duodenum
6	chr7:102939600-102969800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr7:102939600-102970000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr7:102939800-102969800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr7:102939800-102980800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr7:102939800-102984000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr7:102939800-102984200	Weak transcription	Stomach Mucosa	stomach
12	chr7:102940000-102969000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr7:102940000-102983000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr7:102940400-102970200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr7:102940800-102969800	Strong transcription	Dnd41	blood
16	chr7:102943400-102970000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr7:102948600-102970400	Strong transcription	Monocytes-CD14+_RO01746	blood
18	chr7:102948800-102982600	Strong transcription	Primary monocytes fromperipheralblood	blood
19	chr7:102952000-102983800	Weak transcription	Pancreatic Islets	Pancreatic Islet
20	chr7:102954600-102984000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
21	chr7:102955000-102969800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr7:102957400-102977000	Weak transcription	Fetal Brain Male	brain
23	chr7:102958800-102969200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr7:102959400-102977000	Weak transcription	Colonic Mucosa	Colon
25	chr7:102959600-102974600	Weak transcription	Esophagus	oesophagus
26	chr7:102959600-102981200	Weak transcription	Pancreas	Pancrea
27	chr7:102960200-102981000	Weak transcription	Fetal Heart	heart
28	chr7:102960400-102984200	Weak transcription	Spleen	Spleen
29	chr7:102960600-102976400	Weak transcription	Small Intestine	intestine
30	chr7:102960600-102977400	Weak transcription	Brain Angular Gyrus	brain
31	chr7:102960800-102977400	Weak transcription	Psoas Muscle	Psoas
32	chr7:102961000-102975400	Weak transcription	Brain Inferior Temporal Lobe	brain
33	chr7:102961800-102975800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
34	chr7:102962400-102970000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr7:102962400-102977200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
36	chr7:102962400-102977400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
37	chr7:102962400-102981400	Weak transcription	Gastric	stomach
38	chr7:102962400-102984200	Weak transcription	Aorta	Aorta
39	chr7:102963200-102977000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr7:102963800-102969800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr7:102964200-102969800	Strong transcription	Primary B cells from cord blood	blood
42	chr7:102964200-102969800	Strong transcription	Brain Anterior Caudate	brain
43	chr7:102964600-102976000	Weak transcription	Brain Hippocampus Middle	brain
44	chr7:102964800-102969600	Strong transcription	Fetal Stomach	stomach
45	chr7:102964800-102977200	Strong transcription	Fetal Intestine Small	intestine
46	chr7:102965000-102969000	Strong transcription	Cortex derived primary cultured neurospheres	brain
47	chr7:102965600-102974800	Weak transcription	Fetal Lung	lung
48	chr7:102965600-102975200	Weak transcription	Fetal Brain Female	brain
49	chr7:102965600-102977200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
50	chr7:102965600-102977400	Weak transcription	Rectal Smooth Muscle	rectum

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