Variant report

Variant	rs6427672
Chromosome Location	chr1:154435346-154435347
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:154423682..154425869-chr1:154434875..154437152,2	MCF-7	breast:
2	chr1:154435097..154437712-chr1:154439386..154441987,2	MCF-7	breast:

Extended variants
information (count: 22 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10752641	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10908839	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2229238	0.90[ASN][1000 genomes]
rs35699331	0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4072391	0.86[ASN][1000 genomes]
rs4240872	0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4291493	0.81[AFR][1000 genomes]
rs4341355	0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4379670	0.81[ASN][1000 genomes]
rs4509570	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55668699	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6687597	0.93[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6698040	0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7514452	0.90[ASN][1000 genomes]
rs7537291	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7537316	0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7546068	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7546552	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7546555	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[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	nsv948413	chr1:153974621-154797272	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	132 gene(s)	inside rSNPs	diseases
2	nsv1000402	chr1:153991106-154527053	Strong transcription Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	106 gene(s)	inside rSNPs	diseases
3	nsv521887	chr1:154236570-154684106	Strong transcription Flanking Active TSS Active TSS Weak transcription Enhancers Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	65 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6427672	TDRD10	cis	lung	GTEx

Chromatin state (count:91 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:154414800-154436000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr1:154416200-154435800	Strong transcription	Liver	Liver
3	chr1:154418000-154440000	Weak transcription	Small Intestine	intestine
4	chr1:154419200-154435800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr1:154422600-154437600	Weak transcription	Pancreas	Pancrea
6	chr1:154424800-154436000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr1:154425000-154437200	Weak transcription	Fetal Stomach	stomach
8	chr1:154426000-154436200	Weak transcription	Brain Cingulate Gyrus	brain
9	chr1:154426200-154436000	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr1:154426400-154435600	Weak transcription	Stomach Mucosa	stomach
11	chr1:154426400-154436000	Weak transcription	Esophagus	oesophagus
12	chr1:154426400-154436000	Weak transcription	Fetal Lung	lung
13	chr1:154426400-154438000	Weak transcription	Psoas Muscle	Psoas
14	chr1:154426600-154435400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr1:154426600-154435800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr1:154426600-154435800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr1:154426600-154435800	Weak transcription	Fetal Muscle Leg	muscle
18	chr1:154426600-154440600	Weak transcription	Brain Angular Gyrus	brain
19	chr1:154426800-154435800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr1:154426800-154435800	Weak transcription	Osteobl	bone
21	chr1:154426800-154436000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr1:154426800-154441200	Weak transcription	Brain Substantia Nigra	brain
23	chr1:154426800-154442200	Weak transcription	HepG2	liver
24	chr1:154426800-154450000	Weak transcription	Fetal Intestine Small	intestine
25	chr1:154427000-154435400	Weak transcription	HMEC	breast
26	chr1:154427000-154435600	Weak transcription	Primary hematopoietic stem cells	blood
27	chr1:154427600-154436000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr1:154427800-154435600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr1:154427800-154435600	Weak transcription	NHEK	skin
30	chr1:154427800-154435800	Weak transcription	NHLF	lung
31	chr1:154427800-154436000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
32	chr1:154427800-154464800	Weak transcription	Ovary	ovary
33	chr1:154428600-154437600	Weak transcription	Gastric	stomach
34	chr1:154429400-154436000	Weak transcription	Right Ventricle	heart
35	chr1:154429800-154446200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr1:154430400-154436000	Weak transcription	Spleen	Spleen
37	chr1:154430400-154438800	Weak transcription	Primary B cells from cord blood	blood
38	chr1:154431000-154435800	Weak transcription	Sigmoid Colon	Sigmoid Colon
39	chr1:154431000-154437400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr1:154431200-154437600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr1:154431600-154436000	Weak transcription	Colonic Mucosa	Colon
42	chr1:154431600-154441400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
43	chr1:154431800-154435800	Enhancers	Primary T helper cells PMA-I stimulated	--
44	chr1:154431800-154435800	Weak transcription	Duodenum Smooth Muscle	Duodenum
45	chr1:154431800-154435800	Weak transcription	Rectal Smooth Muscle	rectum
46	chr1:154431800-154436000	Enhancers	Primary T helper cells fromperipheralblood	blood
47	chr1:154431800-154436000	Weak transcription	Duodenum Mucosa	Duodenum
48	chr1:154431800-154436200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr1:154432000-154435800	Weak transcription	Brain Hippocampus Middle	brain
50	chr1:154432000-154436000	Weak transcription	Brain Anterior Caudate	brain

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