Variant report

Variant	rs6432064
Chromosome Location	chr2:10259503-10259504
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:6)
CpG islands
(count:0)
Chromatin interactive
region (count:15)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr2:10259419-10264186	PANC-1	pancreas:	n/a	n/a
2	ARID3A	chr2:10259413-10259550	K562	blood:	n/a	n/a
3	ARID3A	chr2:10259200-10259765	HepG2	liver:	n/a	n/a
4	MYC	chr2:10259434-10259537	MCF10A-Er-Src	breast:	n/a	n/a
5	TCF7L2	chr2:10259273-10259717	HepG2	liver:	n/a	n/a
6	MXI1	chr2:10259320-10265654	SK-N-SH	brain:	n/a	n/a

No data

(count:15 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr2:10259345..10261058-chr2:11886635..11888299,2	K562	blood:
2	chr2:10259191..10262555-chr2:10441232..10444497,4	K562	blood:
3	chr2:10258968..10261511-chr2:10592370..10593995,2	MCF-7	breast:
4	chr2:10259183..10262149-chr2:10441411..10444855,4	MCF-7	breast:
5	chr2:10168238..10170580-chr2:10257778..10260756,2	K562	blood:
6	chr2:10181218..10185124-chr2:10258845..10261889,3	MCF-7	breast:
7	chr2:9941416..9943332-chr2:10258311..10260459,2	K562	blood:
8	chr2:10181815..10186886-chr2:10257895..10263826,12	K562	blood:
9	chr2:10181485..10190041-chr2:10258160..10265104,19	K562	blood:
10	chr2:10257984..10265070-chr2:10582045..10589780,17	K562	blood:
11	chr2:9769329..9772234-chr2:10259369..10263419,6	K562	blood:
12	chr2:9769329..9772328-chr2:10259369..10262409,6	K562	blood:
13	chr2:10229570..10233123-chr2:10259464..10263291,4	K562	blood:
14	chr2:10247985..10250087-chr2:10258570..10260545,2	MCF-7	breast:
15	chr2:9909026..9912481-chr2:10259443..10262566,4	K562	blood:

No data

Variant related genes	Relation type
ENSG00000272524	TF binding region
RRM2	TF binding region
ENSG00000206633	Chromatin interaction
ENSG00000217258	Chromatin interaction
ENSG00000115758	Chromatin interaction
ENSG00000134308	Chromatin interaction
ENSG00000134324	Chromatin interaction
ENSG00000115756	Chromatin interaction
ENSG00000172059	Chromatin interaction
ENSG00000243491	Chromatin interaction
ENSG00000257135	Chromatin interaction
ENSG00000212558	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10197121	0.81[JPT][hapmap]
rs1130609	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11896140	0.81[JPT][hapmap]
rs13392622	0.95[ASN][1000 genomes]
rs2110641	0.81[JPT][hapmap]
rs2110643	0.97[ASN][1000 genomes]
rs2160190	0.84[CEU][hapmap]
rs2241113	0.81[JPT][hapmap]
rs34455011	0.85[ASN][1000 genomes]
rs4309551	0.95[CHB][hapmap];0.97[CHD][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs4668664	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs6432062	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6432065	0.98[ASN][1000 genomes]
rs6432066	0.81[CEU][hapmap]
rs6432068	0.81[JPT][hapmap]
rs6706570	0.81[JPT][hapmap]
rs6715884	0.97[ASN][1000 genomes]
rs6737932	0.98[ASN][1000 genomes]
rs6741290	0.95[CHB][hapmap];0.97[CHD][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs6749325	0.81[JPT][hapmap]
rs6759180	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs717886	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs718215	1.00[ASW][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs729917	1.00[ASW][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs7577887	0.98[ASN][1000 genomes]
rs7603436	0.96[ASN][1000 genomes]
rs7604817	0.93[ASN][1000 genomes]
rs7605457	0.80[CEU][hapmap]

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	nsv1011125	chr2:9996740-10293803	Enhancers Strong transcription Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	83 gene(s)	inside rSNPs	diseases
2	nsv1011689	chr2:10023891-10293803	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	83 gene(s)	inside rSNPs	diseases
3	nsv1007965	chr2:10154960-10276125	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
4	nsv1014790	chr2:10156968-10274855	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
5	nsv999019	chr2:10157762-10273232	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
6	nsv873633	chr2:10175442-10266563	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
7	nsv1010706	chr2:10189219-10266995	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:10242200-10260200	Weak transcription	Right Atrium	heart
2	chr2:10256200-10260000	Weak transcription	HMEC	breast
3	chr2:10256400-10259600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr2:10256800-10259600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr2:10257000-10259800	Enhancers	Primary neutrophils fromperipheralblood	blood
6	chr2:10257200-10260200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr2:10257600-10260000	Enhancers	Primary hematopoietic stem cells short term culture	blood
8	chr2:10257800-10259600	Enhancers	GM12878-XiMat	blood
9	chr2:10258200-10259600	Enhancers	Dnd41	blood
10	chr2:10258200-10259600	Enhancers	K562	blood
11	chr2:10258400-10259800	Weak transcription	Primary hematopoietic stem cells	blood
12	chr2:10258400-10260000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr2:10258400-10260000	Enhancers	Liver	Liver
14	chr2:10258600-10259600	Weak transcription	Monocytes-CD14+_RO01746	blood
15	chr2:10258600-10260000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr2:10258600-10260000	Weak transcription	Thymus	Thymus
17	chr2:10258600-10260200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr2:10258600-10260200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr2:10258600-10260200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr2:10258600-10260200	Weak transcription	NHDF-Ad	bronchial
21	chr2:10258600-10260200	Weak transcription	NHLF	lung
22	chr2:10258600-10260400	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr2:10258800-10259800	Weak transcription	Primary monocytes fromperipheralblood	blood
24	chr2:10258800-10259800	Weak transcription	Primary B cells from cord blood	blood
25	chr2:10258800-10259800	Weak transcription	Primary T cells fromperipheralblood	blood
26	chr2:10258800-10260000	Weak transcription	Primary B cells from peripheral blood	blood
27	chr2:10258800-10260000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
28	chr2:10258800-10260000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
29	chr2:10258800-10260000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
30	chr2:10258800-10260000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr2:10258800-10260000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr2:10258800-10260000	Weak transcription	NH-A	brain
33	chr2:10258800-10260200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr2:10258800-10260200	Weak transcription	HUVEC	blood vessel
35	chr2:10259200-10259600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
36	chr2:10259200-10259600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr2:10259200-10259600	Enhancers	A549	lung
38	chr2:10259200-10259800	Enhancers	Hela-S3	cervix
39	chr2:10259400-10259800	Enhancers	Duodenum Mucosa	Duodenum
40	chr2:10259400-10260200	Enhancers	Fetal Thymus	thymus
41	chr2:10259400-10260400	Flanking Active TSS	HepG2	liver

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