Variant report

Variant	rs4574672
Chromosome Location	chr6:114079778-114079779
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:114078677..114080335-chr6:114081487..114084433,2	MCF-7	breast:
2	chr6:114079000..114080556-chr6:114084506..114086465,2	K562	blood:

Extended variants
information (count: 39 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs13209042	0.95[CHB][hapmap]
rs2018090	0.87[ASN][1000 genomes]
rs2463310	0.83[ASN][1000 genomes]
rs2615518	0.86[ASN][1000 genomes]
rs2695451	0.86[ASN][1000 genomes]
rs2695452	0.86[ASN][1000 genomes]
rs2810179	0.95[CHB][hapmap]
rs2810189	0.87[ASN][1000 genomes]
rs2810195	0.95[CHB][hapmap]
rs34777588	0.96[ASN][1000 genomes]
rs4496829	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs55705700	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6568807	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6918103	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6923574	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6940434	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs71553754	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs773685	0.95[JPT][hapmap]
rs7760821	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7765004	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9372374	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9372376	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9374426	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9374427	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9384882	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9387174	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9387176	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9387177	0.89[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9400667	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9400671	0.87[ASN][1000 genomes]
rs9400672	0.87[ASN][1000 genomes]
rs9400676	0.95[CHB][hapmap]
rs949599	0.87[ASN][1000 genomes]
rs959211	0.95[CHB][hapmap]
rs963884	0.95[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021774	chr6:114063971-114407280	Enhancers Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
2	nsv538422	chr6:114063971-114407280	Genic enhancers Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
3	nsv464023	chr6:114071720-114114057	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
4	nsv604532	chr6:114071720-114114057	Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4574672	LOC285758	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:114077000-114085000	Weak transcription	Psoas Muscle	Psoas
2	chr6:114077400-114080400	Weak transcription	Primary B cells from cord blood	blood
3	chr6:114077600-114080200	Weak transcription	Primary B cells from peripheral blood	blood
4	chr6:114077600-114080200	Weak transcription	Fetal Muscle Leg	muscle
5	chr6:114077600-114080800	Enhancers	GM12878-XiMat	blood
6	chr6:114077600-114083800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr6:114077600-114084600	Weak transcription	HSMM	muscle
8	chr6:114079200-114080600	Enhancers	Placenta	Placenta
9	chr6:114079200-114081400	Enhancers	Primary neutrophils fromperipheralblood	blood
10	chr6:114079400-114080000	Enhancers	Monocytes-CD14+_RO01746	blood
11	chr6:114079400-114080800	Enhancers	Primary monocytes fromperipheralblood	blood
12	chr6:114079600-114080600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
13	chr6:114079600-114080800	Enhancers	Primary hematopoietic stem cells short term culture	blood
14	chr6:114079600-114080800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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