Variant report

Variant	rs4574459
Chromosome Location	chr4:158912634-158912635
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

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

No.	Distal block	Cell Line	Cell type
1	chr4:158903375..158906273-chr4:158910414..158912767,2	MCF-7	breast:
2	chr4:158912571..158916849-chr4:159013907..159018478,8	MCF-7	breast:
3	chr4:158912546..158913601-chr4:159176480..159177317,4	MCF-7	breast:
4	chr4:158905912..158908595-chr4:158911645..158913672,2	K562	blood:
5	chr4:158912471..158914570-chr4:159016207..159019038,2	MCF-7	breast:
6	chr4:158911789..158914319-chr4:159172827..159175219,2	MCF-7	breast:
7	chr4:158912006..158922011-chr4:159085009..159099282,46	MCF-7	breast:
8	chr4:158908850..158922778-chr4:159084957..159098830,43	MCF-7	breast:
9	chr4:158906995..158909234-chr4:158911309..158913634,2	MCF-7	breast:
10	chr4:158912447..158914519-chr4:159011128..159013827,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000164125	Chromatin interaction
ENSG00000248429	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10003459	0.92[CEU][hapmap];0.88[CHB][hapmap];0.90[CHD][hapmap];0.88[GIH][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap]
rs10005901	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10027000	0.92[CEU][hapmap];0.94[CHB][hapmap];0.95[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10049927	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10517684	0.80[CHD][hapmap]
rs10857307	0.80[CHD][hapmap]
rs13137826	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17036918	0.80[CHD][hapmap]
rs17036921	0.80[CHD][hapmap]
rs28635553	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4072170	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4077776	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4077777	0.83[EUR][1000 genomes]
rs4388135	0.85[CEU][hapmap];0.88[CHB][hapmap];0.88[JPT][hapmap]
rs4460050	0.80[CHD][hapmap]
rs4487405	0.96[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4504305	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4521391	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4615226	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4631100	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4691447	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4691449	0.80[CHD][hapmap]
rs4691460	0.81[CHB][hapmap]
rs6536298	0.85[CHD][hapmap];0.83[TSI][hapmap]
rs66490968	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6814979	0.89[CEU][hapmap];0.88[CHB][hapmap];0.85[CHD][hapmap];0.85[GIH][hapmap];0.82[MEX][hapmap];0.84[TSI][hapmap]
rs6830475	0.81[CHB][hapmap]
rs6833295	0.85[CEU][hapmap];0.81[CHB][hapmap]
rs6843728	0.92[CEU][hapmap];0.88[CHB][hapmap];0.90[CHD][hapmap];0.88[JPT][hapmap];0.95[TSI][hapmap]
rs6847800	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6848159	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7657303	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7673290	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7682867	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7692254	0.81[CEU][hapmap];0.88[CHB][hapmap];0.86[CHD][hapmap];0.80[GIH][hapmap];0.82[MEX][hapmap];0.86[TSI][hapmap]
rs9968557	0.88[CEU][hapmap];0.88[CHB][hapmap];0.90[CHD][hapmap];0.88[GIH][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap]
rs9991381	0.97[AMR][1000 genomes];0.97[EUR][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	nsv993476	chr4:158550643-159202015	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1030124	chr4:158758675-159251140	Bivalent/Poised TSS Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv881288	chr4:158891733-159028080	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4574459	DKFZp434L142	cis	multi-tissue	Pritchard

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:158905200-158912800	Weak transcription	Primary neutrophils fromperipheralblood	blood
2	chr4:158910200-158913000	Weak transcription	Primary hematopoietic stem cells	blood
3	chr4:158910200-158913000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr4:158910200-158913000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr4:158910400-158912800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr4:158910800-158913000	Weak transcription	Monocytes-CD14+_RO01746	blood
7	chr4:158912000-158913000	Weak transcription	Primary monocytes fromperipheralblood	blood
8	chr4:158912000-158913400	Weak transcription	Aorta	Aorta

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