Variant report

Variant	rs10946161
Chromosome Location	chr6:166760258-166760259
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOSL2	chr6:166759872-166760282	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:166756132..166758070-chr6:166759956..166762577,2	MCF-7	breast:
2	chr6:166760014..166762085-chr6:166763388..166765449,3	K562	blood:
3	chr6:166755096..166757730-chr6:166758718..166761451,2	MCF-7	breast:
4	chr6:166751208..166754791-chr6:166757264..166760335,3	MCF-7	breast:

Variant related genes	Relation type
SFT2D1	TF binding region
ENSG00000198818	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10455809	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10455976	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10455977	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10455978	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10946152	0.81[EUR][1000 genomes]
rs10946158	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10946160	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11551053	0.85[ASN][1000 genomes]
rs11752886	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11753652	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11755305	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12198613	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12209616	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12214281	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12214812	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12662924	0.82[EUR][1000 genomes]
rs1599841	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2294333	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2294334	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2294335	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4144886	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4144887	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4144888	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55936781	0.80[EUR][1000 genomes]
rs59337176	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs66461381	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs68016351	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73030701	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73263155	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73788236	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7753161	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7771603	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs941683	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[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	esv3490076	chr6:166727901-167306743	Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	25 gene(s)	inside rSNPs	diseases
2	esv3490077	chr6:166727901-167306743	Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	25 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10946161	SFT2D1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:166757000-166765200	Weak transcription	Brain Hippocampus Middle	brain
2	chr6:166757000-166765400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr6:166757000-166779200	Weak transcription	Right Atrium	heart
4	chr6:166757200-166761000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr6:166757400-166760400	Weak transcription	Primary neutrophils fromperipheralblood	blood
6	chr6:166757400-166762600	Enhancers	HepG2	liver
7	chr6:166759800-166762000	Enhancers	Primary monocytes fromperipheralblood	blood
8	chr6:166759800-166763000	Enhancers	Liver	Liver
9	chr6:166760000-166761200	Enhancers	Monocytes-CD14+_RO01746	blood
10	chr6:166760200-166760600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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