Variant report

Variant	rs7859489
Chromosome Location	chr9:97403289-97403290
allele	C/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	SIN3A	chr9:97403288-97403330	H1-hESC	embryonic stem cell:	n/a	n/a

Variant related genes	Relation type
FBP1	TF binding region

Extended variants
information (count: 40 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10993270	0.89[CHB][hapmap]
rs12006206	0.85[CHB][hapmap]
rs12683407	0.81[EUR][1000 genomes]
rs12684841	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12684849	0.81[EUR][1000 genomes]
rs12685485	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16910850	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16910853	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16910860	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2296707	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28369691	0.90[EUR][1000 genomes]
rs28369738	0.81[EUR][1000 genomes]
rs28369782	0.81[EUR][1000 genomes]
rs28369786	0.81[EUR][1000 genomes]
rs28402377	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28402378	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28402384	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28402386	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28402389	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28402390	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28402396	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28402397	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28402401	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28402404	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4111369	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4129219	0.85[CHB][hapmap]
rs59327242	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs59727084	0.81[EUR][1000 genomes]
rs7019207	0.85[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7028990	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7035325	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73523269	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73523271	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7849320	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7850385	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7859022	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.92[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7867069	0.80[CEU][hapmap];0.84[JPT][hapmap];0.81[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	nsv893596	chr9:97321172-97598966	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
2	nsv614918	chr9:97380597-97412037	Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv893597	chr9:97380597-97463435	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97402200-97403400	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
2	chr9:97402200-97410400	Weak transcription	Esophagus	oesophagus
3	chr9:97402400-97406600	Enhancers	Primary monocytes fromperipheralblood	blood
4	chr9:97402400-97420000	Weak transcription	Right Atrium	heart
5	chr9:97402600-97403400	Enhancers	Fetal Intestine Small	intestine
6	chr9:97402600-97403600	Bivalent Enhancer	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr9:97402600-97411000	Weak transcription	Gastric	stomach
8	chr9:97402600-97415400	Weak transcription	Spleen	Spleen
9	chr9:97402800-97403400	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
10	chr9:97402800-97405600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr9:97402800-97411600	Weak transcription	Primary B cells from cord blood	blood
12	chr9:97403000-97403400	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
13	chr9:97403000-97404800	Weak transcription	Lung	lung
14	chr9:97403000-97405000	Weak transcription	Primary neutrophils fromperipheralblood	blood
15	chr9:97403000-97406800	Weak transcription	Fetal Intestine Large	intestine
16	chr9:97403000-97406800	Weak transcription	Placenta	Placenta
17	chr9:97403000-97410600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr9:97403200-97403400	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
19	chr9:97403200-97403600	Enhancers	Monocytes-CD14+_RO01746	blood
20	chr9:97403200-97405600	Weak transcription	Stomach Mucosa	stomach
21	chr9:97403200-97406600	Weak transcription	Duodenum Mucosa	Duodenum

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