Variant report

Variant	rs16938384
Chromosome Location	chr9:21400196-21400197
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	SPI1	chr9:21400097-21400341	GM12891	blood:	n/a	chr9:21400178-21400191 chr9:21400181-21400188 chr9:21400180-21400189
2	EBF1	chr9:21400069-21400234	GM12878	blood:	n/a	chr9:21400105-21400116 chr9:21400107-21400116

Variant related genes	Relation type
ENSG00000261696	TF binding region
IFNA11P	TF binding region
IFNA12P	TF binding region

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10811535	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10811538	0.82[EUR][1000 genomes]
rs10811542	0.87[EUR][1000 genomes]
rs10811545	0.87[EUR][1000 genomes]
rs10811551	1.00[CEU][hapmap]
rs10964979	1.00[YRI][hapmap]
rs10964981	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10964982	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10964985	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs10964986	0.80[EUR][1000 genomes]
rs10964987	0.82[EUR][1000 genomes]
rs10964989	0.87[EUR][1000 genomes]
rs10965002	1.00[CEU][hapmap]
rs10965005	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs10965008	1.00[CEU][hapmap]
rs10965019	1.00[CEU][hapmap]
rs10965024	1.00[CEU][hapmap]
rs12156640	1.00[CEU][hapmap]
rs12552330	0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1332180	0.91[EUR][1000 genomes]
rs4978112	0.89[ASN][1000 genomes]
rs4978113	1.00[YRI][hapmap]
rs55938615	0.87[EUR][1000 genomes]
rs7034161	1.00[CEU][hapmap]
rs7861480	0.85[CEU][hapmap]
rs7867089	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv892724	chr9:20690244-21517302	Genic enhancers Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	153 gene(s)	inside rSNPs	diseases
2	nsv892737	chr9:21352862-21408824	Bivalent/Poised TSS Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	esv2752289	chr9:21361957-21499624	Weak transcription Active TSS Enhancers Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv892738	chr9:21371264-21413085	Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv466297	chr9:21391698-21507589	Enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv613758	chr9:21391698-21507589	Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:21396600-21401800	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr9:21396600-21402200	Weak transcription	Brain Cingulate Gyrus	brain
3	chr9:21396600-21402200	Weak transcription	Rectal Smooth Muscle	rectum
4	chr9:21399000-21402000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr9:21400000-21400200	Flanking Active TSS	Brain Substantia Nigra	brain
6	chr9:21400000-21400200	Flanking Active TSS	GM12878-XiMat	blood

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