Variant report

Variant	rs6789329
Chromosome Location	chr3:136476862-136476863
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	chr3:136476053..136479031-chr3:136579803..136582728,2	K562	blood:
2	chr3:136476088..136479031-chr3:136581100..136582728,2	K562	blood:

Variant related genes	Relation type
ENSG00000158092	Chromatin interaction
ENSG00000239213	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10155016	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10155017	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10513014	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10935186	0.92[CHB][hapmap];0.93[CHD][hapmap]
rs11919030	1.00[CHB][hapmap];0.93[CHD][hapmap];0.81[JPT][hapmap]
rs12107125	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1280624	0.89[ASN][1000 genomes]
rs13433980	0.91[CEU][hapmap];0.85[GIH][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap]
rs1484250	0.91[CEU][hapmap]
rs1681817	1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1729951	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs1872240	0.83[EUR][1000 genomes]
rs2062322	1.00[CHB][hapmap];0.90[CHD][hapmap];0.81[JPT][hapmap]
rs28489907	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34992220	0.83[ASW][hapmap];0.95[CEU][hapmap];0.92[GIH][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.85[YRI][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35874192	0.93[ASN][1000 genomes]
rs4038578	1.00[CHB][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs4336059	0.86[CEU][hapmap];0.85[GIH][hapmap];0.94[MEX][hapmap]
rs4408829	1.00[CHB][hapmap];0.89[CHD][hapmap];0.81[JPT][hapmap]
rs4521165	1.00[CHB][hapmap];0.93[CHD][hapmap]
rs6439649	1.00[CHB][hapmap];0.93[CHD][hapmap]
rs6764567	0.85[ASN][1000 genomes]
rs6765239	0.91[CEU][hapmap];0.85[GIH][hapmap];0.94[MEX][hapmap]
rs6771713	0.91[CEU][hapmap];0.87[GIH][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];0.84[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs6782151	0.86[CEU][hapmap];0.87[GIH][hapmap];0.84[LWK][hapmap];0.94[MEX][hapmap];0.87[MKK][hapmap]
rs6791142	1.00[CHB][hapmap];0.89[CHD][hapmap];0.81[JPT][hapmap]
rs6799699	0.91[CEU][hapmap];0.87[GIH][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];0.84[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs6800969	0.91[CEU][hapmap]
rs6802702	1.00[CHB][hapmap];0.96[CHD][hapmap];0.81[JPT][hapmap];0.93[ASN][1000 genomes]
rs7432375	0.92[CHB][hapmap];0.86[CHD][hapmap];0.81[JPT][hapmap]
rs7616204	1.00[CHB][hapmap];0.96[CHD][hapmap];0.81[JPT][hapmap];0.87[ASN][1000 genomes]
rs7618518	1.00[CHB][hapmap];0.93[CHD][hapmap]
rs7618871	1.00[CHB][hapmap];0.96[CHD][hapmap];0.81[JPT][hapmap]
rs7623824	0.86[CEU][hapmap];0.85[GIH][hapmap];0.94[MEX][hapmap]
rs7644346	0.91[CEU][hapmap];0.87[GIH][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap]
rs7644471	0.86[CEU][hapmap];0.85[GIH][hapmap];0.93[MEX][hapmap]
rs900818	1.00[CHB][hapmap];0.96[CHD][hapmap];0.81[JPT][hapmap];0.96[ASN][1000 genomes]
rs940174	0.92[CHB][hapmap];0.86[CHD][hapmap];0.81[JPT][hapmap]
rs9813590	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9813596	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9820513	0.91[CEU][hapmap];0.85[GIH][hapmap];1.00[MEX][hapmap]
rs9821478	0.92[JPT][hapmap]
rs9833207	0.92[JPT][hapmap]
rs9836231	1.00[CHB][hapmap];0.96[CHD][hapmap];0.81[JPT][hapmap]
rs9839574	0.91[CEU][hapmap];0.85[GIH][hapmap]
rs9845950	0.91[CEU][hapmap];0.87[GIH][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap]
rs9853960	0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9869957	0.91[CEU][hapmap]
rs9881078	0.84[AFR][1000 genomes];0.83[EUR][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	nsv877529	chr3:136364511-136487559	ZNF genes & repeats Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
2	nsv1006737	chr3:136466188-136530743	Active TSS Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6789329	ZBTB38	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:136473000-136477200	Weak transcription	Adipose Nuclei	Adipose
2	chr3:136473200-136477200	Weak transcription	Primary hematopoietic stem cells	blood
3	chr3:136473600-136477000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr3:136473600-136477000	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr3:136476600-136477000	Enhancers	Monocytes-CD14+_RO01746	blood
6	chr3:136476800-136477200	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr3:136476800-136477200	Active TSS	Primary hematopoietic stem cells short term culture	blood
8	chr3:136476800-136477200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr3:136476800-136477400	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
10	chr3:136476800-136477400	Enhancers	Primary B cells from cord blood	blood

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