Variant report

Variant	rs4496829
Chromosome Location	chr6:114079720-114079721
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	chr6:114078677..114080335-chr6:114081487..114084433,2	MCF-7	breast:
2	chr6:114079000..114080556-chr6:114084506..114086465,2	K562	blood:

Extended variants
information (count: 49 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs1026635	0.81[ASN][1000 genomes]
rs1026636	0.81[ASN][1000 genomes]
rs1026640	0.81[ASN][1000 genomes]
rs1031797	0.81[ASN][1000 genomes]
rs1031798	0.81[ASN][1000 genomes]
rs13209042	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1585564	0.81[ASN][1000 genomes]
rs17075611	0.81[ASN][1000 genomes]
rs2126461	0.81[ASN][1000 genomes]
rs2126462	0.81[ASN][1000 genomes]
rs2615508	0.81[ASN][1000 genomes]
rs2615530	0.81[ASN][1000 genomes]
rs2615531	0.81[ASN][1000 genomes]
rs2615532	0.81[ASN][1000 genomes]
rs2615533	0.81[ASN][1000 genomes]
rs2810179	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs2810182	0.82[ASN][1000 genomes]
rs2810187	0.81[ASN][1000 genomes]
rs2810188	0.81[ASN][1000 genomes]
rs2810191	0.82[ASN][1000 genomes]
rs2810195	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs34777588	0.85[ASN][1000 genomes]
rs4574672	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4945503	0.81[ASN][1000 genomes]
rs55705700	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6568807	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6918103	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6923574	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6940434	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs71553754	0.81[EUR][1000 genomes]
rs7760821	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7765004	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9372374	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9372376	0.80[AFR][1000 genomes];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9374426	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9374427	0.81[EUR][1000 genomes]
rs9384882	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9387174	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9387176	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9387177	0.89[CHB][hapmap];0.88[ASN][1000 genomes]
rs9387179	0.81[ASN][1000 genomes]
rs9400667	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9400676	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs959211	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs963884	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]

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
rs4496829	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

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links