Variant report

Variant	rs61636409
Chromosome Location	chr3:100210362-100210363
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	chr3:100203629..100205546-chr3:100208727..100210663,2	MCF-7	breast:
2	chr3:100120020..100122994-chr3:100208186..100210506,3	K562	blood:

Variant related genes	Relation type
ENSG00000154174	Chromatin interaction
ENSG00000206535	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs11923942	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11927516	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12631075	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12634371	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12636452	0.81[AMR][1000 genomes]
rs12636805	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12639465	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4928097	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs57018910	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs59299896	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs60071944	0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs60272820	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62276517	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62276520	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62276521	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62276522	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62276523	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62276526	0.99[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62276556	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62276559	0.89[EUR][1000 genomes]
rs66791174	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs67600559	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6763079	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6763178	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs67774605	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6798264	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73152126	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7429072	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7429277	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7429604	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7430698	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7430715	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7431846	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7616839	0.85[ASN][1000 genomes]
rs7640470	0.95[ASN][1000 genomes]
rs9851429	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877218	chr3:100176360-100267619	Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs61636409	TMEM45A	cis	Whole Blood	GTEx

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:100205000-100210400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:100205000-100210800	Weak transcription	K562	blood
3	chr3:100206600-100210600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr3:100209600-100210600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr3:100209600-100210800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
6	chr3:100210000-100210400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr3:100210000-100210400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr3:100210000-100210400	Enhancers	Brain Substantia Nigra	brain
9	chr3:100210000-100210400	Enhancers	Pancreas	Pancrea
10	chr3:100210000-100210600	Enhancers	Fetal Brain Female	brain
11	chr3:100210000-100210600	Enhancers	HMEC	breast
12	chr3:100210000-100210800	Enhancers	Placenta Amnion	Placenta Amnion
13	chr3:100210200-100210400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr3:100210200-100210400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr3:100210200-100210400	Enhancers	Liver	Liver
16	chr3:100210200-100210400	Enhancers	Brain Germinal Matrix	brain
17	chr3:100210200-100210400	Bivalent Enhancer	Duodenum Mucosa	Duodenum
18	chr3:100210200-100210400	Enhancers	Fetal Lung	lung
19	chr3:100210200-100210400	Enhancers	Fetal Stomach	stomach
20	chr3:100210200-100210400	Enhancers	NHLF	lung
21	chr3:100210200-100210600	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr3:100210200-100210600	Enhancers	Fetal Heart	heart
23	chr3:100210200-100210600	Bivalent Enhancer	Fetal Intestine Small	intestine
24	chr3:100210200-100210800	Weak transcription	Psoas Muscle	Psoas

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