Variant report

Variant	rs9880271
Chromosome Location	chr3:67493140-67493141
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs12489223	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12489897	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4320072	1.00[ASW][hapmap];0.95[CEU][hapmap];0.81[CHB][hapmap];0.80[CHD][hapmap];0.95[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4334653	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4377498	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4455333	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4515060	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4856787	0.84[AFR][1000 genomes];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6548542	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7623396	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7645948	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9824745	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9868494	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9880590	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1007093	chr3:67113534-67602973	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv470638	chr3:67367341-67814738	Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv460700	chr3:67393629-67712970	Genic enhancers Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv590560	chr3:67393629-67712970	Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv834719	chr3:67396626-67589852	Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
6	nsv508221	chr3:67487240-67509429	Weak transcription Enhancers Strong transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
7	esv3495524	chr3:67492840-67497716	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:67435600-67509800	Weak transcription	Ovary	ovary
2	chr3:67435600-67534200	Weak transcription	Aorta	Aorta
3	chr3:67466600-67508400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr3:67471200-67503800	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr3:67471400-67497600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr3:67471600-67518800	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr3:67472000-67506200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
8	chr3:67472000-67509800	Weak transcription	HSMM	muscle
9	chr3:67473400-67521000	Weak transcription	Primary T helper cells PMA-I stimulated	--
10	chr3:67473600-67542000	Weak transcription	Duodenum Mucosa	Duodenum
11	chr3:67478200-67512200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr3:67481400-67493400	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr3:67482600-67527200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr3:67482600-67528600	Weak transcription	GM12878-XiMat	blood
15	chr3:67482800-67503800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
16	chr3:67482800-67520800	Weak transcription	Primary T cells fromperipheralblood	blood
17	chr3:67482800-67533400	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr3:67484000-67511400	Weak transcription	Fetal Lung	lung
19	chr3:67485000-67493200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
20	chr3:67485800-67503800	Weak transcription	Primary B cells from cord blood	blood
21	chr3:67486800-67506000	Weak transcription	Primary T cells from cord blood	blood
22	chr3:67487000-67518600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
23	chr3:67487800-67503400	Weak transcription	Liver	Liver
24	chr3:67487800-67512200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr3:67488000-67544200	Weak transcription	A549	lung
26	chr3:67488400-67566400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
27	chr3:67490200-67511800	Weak transcription	HSMMtube	muscle
28	chr3:67492200-67545400	Weak transcription	Fetal Intestine Small	intestine
29	chr3:67492400-67515400	Weak transcription	Primary B cells from peripheral blood	blood
30	chr3:67492400-67516600	Weak transcription	Primary T helper cells fromperipheralblood	blood

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