Variant report

Variant	rs16902391
Chromosome Location	chr5:35675616-35675617
allele	G/T
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	CEBPB	chr5:35675535-35675851	H1-hESC	embryonic stem cell:	n/a	n/a

Variant related genes	Relation type
SPEF2	TF binding region

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10043875	0.82[CEU][hapmap];0.90[TSI][hapmap]
rs1013154	0.95[CHB][hapmap];0.90[JPT][hapmap];0.92[ASN][1000 genomes]
rs10805608	0.95[CHB][hapmap];0.90[JPT][hapmap];0.91[ASN][1000 genomes]
rs10941256	0.95[CHB][hapmap];0.91[CHD][hapmap];0.90[JPT][hapmap];0.91[ASN][1000 genomes]
rs11957765	0.95[CHB][hapmap];0.85[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12153427	0.86[AFR][1000 genomes]
rs12519864	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.81[YRI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12655830	0.95[CHB][hapmap];0.90[JPT][hapmap];0.87[YRI][hapmap];0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16902406	0.82[CEU][hapmap];0.95[CHB][hapmap];0.90[CHD][hapmap];0.95[GIH][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16902416	0.91[ASN][1000 genomes]
rs34708521	1.00[EUR][1000 genomes]
rs4072772	0.82[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.87[YRI][hapmap];0.80[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4131256	0.82[CEU][hapmap]
rs4869619	0.82[TSI][hapmap]
rs4869631	0.82[TSI][hapmap]
rs55927749	0.88[AFR][1000 genomes]
rs62351872	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62351874	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62351876	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6451212	0.82[CEU][hapmap];1.00[TSI][hapmap]
rs6451216	0.82[TSI][hapmap]
rs6894157	0.91[CHB][hapmap];0.86[CHD][hapmap];0.90[JPT][hapmap];0.91[ASN][1000 genomes]
rs6895801	0.82[TSI][hapmap]
rs7444574	0.95[CHB][hapmap];0.90[JPT][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7444621	0.95[CHB][hapmap];0.90[JPT][hapmap];0.91[ASN][1000 genomes]
rs7447258	0.82[TSI][hapmap]
rs7705331	0.95[CHB][hapmap];0.90[JPT][hapmap];0.91[ASN][1000 genomes]
rs7710284	0.95[CHB][hapmap];0.86[CHD][hapmap];0.90[JPT][hapmap];0.91[ASN][1000 genomes]
rs7736028	0.82[TSI][hapmap]
rs903392	1.00[CHB][hapmap];0.90[JPT][hapmap];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv525477	chr5:35530905-35792990	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv880510	chr5:35659239-35709184	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv881146	chr5:35659239-35714851	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	esv1843371	chr5:35668036-35706279	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:35618600-35678000	Weak transcription	Left Ventricle	heart
2	chr5:35630600-35707600	Weak transcription	Pancreas	Pancrea
3	chr5:35665600-35677800	Weak transcription	Primary monocytes fromperipheralblood	blood
4	chr5:35668600-35675800	Enhancers	Primary hematopoietic stem cells short term culture	blood
5	chr5:35670400-35678800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr5:35672000-35708600	Weak transcription	Gastric	stomach
7	chr5:35673400-35678400	Weak transcription	Lung	lung
8	chr5:35673600-35693400	Weak transcription	Brain Anterior Caudate	brain
9	chr5:35673600-35694600	Weak transcription	Brain Angular Gyrus	brain
10	chr5:35673800-35677400	Weak transcription	Fetal Heart	heart
11	chr5:35673800-35679200	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr5:35674200-35677600	Weak transcription	Primary B cells from cord blood	blood
13	chr5:35674200-35678600	Weak transcription	Fetal Thymus	thymus
14	chr5:35674400-35679200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr5:35674600-35677200	Weak transcription	Primary hematopoietic stem cells	blood
16	chr5:35674800-35682800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
17	chr5:35675000-35679000	Weak transcription	Primary T helper cells PMA-I stimulated	--
18	chr5:35675000-35679200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
19	chr5:35675000-35679200	Weak transcription	Dnd41	blood
20	chr5:35675000-35679400	Weak transcription	Primary T helper cells fromperipheralblood	blood
21	chr5:35675200-35679000	Weak transcription	Primary T cells from cord blood	blood
22	chr5:35675400-35676200	Strong transcription	Brain Hippocampus Middle	brain
23	chr5:35675600-35675800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
24	chr5:35675600-35679200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
25	chr5:35675600-35679400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links