Variant report

Variant	rs10898439
Chromosome Location	chr11:85859483-85859484
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:45)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:45 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	JUND	chr11:85859282-85859861	K562	blood:	n/a	chr11:85859607-85859621
2	TEAD4	chr11:85859017-85860130	K562	blood:	n/a	n/a
3	PML	chr11:85859253-85859864	K562	blood:	n/a	n/a
4	TAL1	chr11:85859009-85859878	K562	blood:	n/a	n/a
5	TBP	chr11:85859381-85859831	K562	blood:	n/a	n/a
6	GATA1	chr11:85858844-85860019	K562	blood:	n/a	chr11:85859546-85859555
7	HMGN3	chr11:85859257-85859922	K562	blood:	n/a	n/a
8	GATA2	chr11:85859309-85859808	K562	blood:	n/a	chr11:85859546-85859555
9	REST	chr11:85859335-85859719	K562	blood:	n/a	n/a
10	RCOR1	chr11:85859367-85859741	K562	blood:	n/a	n/a
11	ZMIZ1	chr11:85859312-85859825	K562	blood:	n/a	n/a
12	REST	chr11:85859452-85859685	K562	blood:	n/a	n/a
13	EP300	chr11:85859397-85859704	K562	blood:	n/a	n/a
14	MAFK	chr11:85859410-85859910	K562	blood:	n/a	n/a
15	RCOR1	chr11:85859187-85859955	K562	blood:	n/a	n/a
16	BHLHE40	chr11:85859382-85859941	K562	blood:	n/a	n/a
17	PML	chr11:85859282-85859842	K562	blood:	n/a	n/a
18	ATF1	chr11:85859329-85859866	K562	blood:	n/a	n/a
19	MAX	chr11:85859480-85859902	K562	blood:	n/a	n/a
20	TBL1XR1	chr11:85859331-85859912	K562	blood:	n/a	n/a
21	ARID3A	chr11:85859270-85860099	K562	blood:	n/a	n/a
22	EP300	chr11:85859299-85859876	K562	blood:	n/a	n/a
23	TRIM28	chr11:85859227-85859875	K562	blood:	n/a	n/a
24	TEAD4	chr11:85859282-85859935	K562	blood:	n/a	n/a
25	STAT5A	chr11:85859296-85859758	K562	blood:	n/a	n/a
26	MYC	chr11:85859233-85859906	K562	blood:	n/a	n/a
27	ZNF274	chr11:85859268-85859791	K562	blood:	n/a	n/a
28	NR2F2	chr11:85859113-85860183	K562	blood:	n/a	n/a
29	CBX3	chr11:85859237-85859847	K562	blood:	n/a	n/a
30	MAZ	chr11:85859044-85859817	K562	blood:	n/a	n/a
31	GATA2	chr11:85859228-85859847	K562	blood:	n/a	chr11:85859546-85859555
32	POLR2A	chr11:85859290-85859748	K562	blood:	n/a	n/a
33	CEBPD	chr11:85859253-85859883	K562	blood:	n/a	n/a
34	POLR2A	chr11:85859420-85859791	K562	blood:	n/a	n/a
35	CEBPD	chr11:85859272-85859901	K562	blood:	n/a	n/a
36	CUX1	chr11:85859343-85859901	K562	blood:	n/a	n/a
37	IRF1	chr11:85859305-85860272	K562	blood:	n/a	n/a
38	GATA2	chr11:85859385-85859833	K562	blood:	n/a	chr11:85859546-85859555
39	IRF1	chr11:85859314-85860041	K562	blood:	n/a	n/a
40	STAT5A	chr11:85859249-85859870	K562	blood:	n/a	n/a
41	MAFF	chr11:85859120-85859876	K562	blood:	n/a	n/a
42	TBL1XR1	chr11:85859365-85859933	K562	blood:	n/a	n/a
43	CCNT2	chr11:85859266-85859996	K562	blood:	n/a	n/a
44	GATA1	chr11:85859039-85859982	PBDE	blood:	n/a	chr11:85859546-85859555
45	NR2F2	chr11:85859315-85859800	K562	blood:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type
1	chr11:85780234..85781784-chr11:85857850..85859662,2	K562	blood:
2	chr11:85778968..85782907-chr11:85858162..85860822,3	K562	blood:
3	chr11:85844772..85849892-chr11:85856973..85861809,6	K562	blood:
4	chr11:85856566..85859537-chr11:85951959..85954165,2	K562	blood:
5	chr11:85858516..85861097-chr11:85882162..85885113,2	K562	blood:
6	chr11:85857814..85859738-chr11:85892040..85894023,2	K562	blood:

No data

Variant related genes	Relation type
RNU6-560P	TF binding region
ENSG00000073921	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10751134	0.95[JPT][hapmap]
rs10792830	0.87[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs10792831	1.00[CEU][hapmap];0.91[CHB][hapmap];0.97[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10792832	0.87[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs10898438	1.00[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.98[TSI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10898440	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11234555	0.83[ASN][1000 genomes]
rs11234556	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1898895	0.87[CHB][hapmap];1.00[JPT][hapmap]
rs2028338	0.88[ASN][1000 genomes]
rs2508692	0.87[CHB][hapmap];1.00[JPT][hapmap]
rs2508696	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs2888903	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3016786	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs3844143	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3851178	1.00[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3851179	0.87[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs3915642	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs472486	0.82[ASN][1000 genomes]
rs475639	0.82[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap]
rs484154	0.88[CHD][hapmap];1.00[JPT][hapmap]
rs493254	0.83[CHB][hapmap];1.00[JPT][hapmap]
rs4944560	0.85[CEU][hapmap];0.87[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.83[TSI][hapmap];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs497816	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs526904	0.91[CHB][hapmap];1.00[JPT][hapmap]
rs532470	0.82[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap]
rs542126	0.91[CHB][hapmap];1.00[JPT][hapmap]
rs545592	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs561646	0.87[CHB][hapmap];1.00[JPT][hapmap]
rs561655	0.84[GIH][hapmap]
rs580887	0.82[ASN][1000 genomes]
rs602222	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs609903	0.82[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap]
rs613222	0.87[CHB][hapmap];1.00[JPT][hapmap]
rs629343	0.91[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap]
rs645299	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs659023	0.86[CHB][hapmap];0.86[CHD][hapmap];0.82[GIH][hapmap];0.95[JPT][hapmap]
rs666682	0.82[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap]
rs669813	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs676733	0.82[CHB][hapmap];0.86[CHD][hapmap];0.95[JPT][hapmap]
rs677909	0.86[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap]
rs682928	0.80[CHB][hapmap];1.00[JPT][hapmap]
rs683494	0.87[CHB][hapmap];1.00[JPT][hapmap]
rs694011	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs7110631	0.91[ASN][1000 genomes]
rs7114331	0.87[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs7114401	0.87[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7129687	0.95[CHB][hapmap];0.91[JPT][hapmap];0.82[ASN][1000 genomes]
rs7941541	0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7952506	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs867611	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs9787874	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][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	nsv1050948	chr11:85756325-85968665	Active TSS Genic enhancers Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
2	nsv541117	chr11:85756325-85968665	Enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
3	nsv832223	chr11:85845315-86015957	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers 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 miRNA target site	36 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:85845800-85859800	Weak transcription	Aorta	Aorta
2	chr11:85846400-85862200	Weak transcription	Psoas Muscle	Psoas
3	chr11:85848000-85861200	Weak transcription	Small Intestine	intestine
4	chr11:85848000-85861600	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr11:85850400-85862600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr11:85852800-85862200	Weak transcription	Right Atrium	heart
7	chr11:85853200-85859800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr11:85853200-85860200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr11:85853200-85860600	Weak transcription	Osteobl	bone
10	chr11:85854400-85862800	Weak transcription	Primary B cells from cord blood	blood
11	chr11:85854800-85862600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr11:85855000-85861800	Weak transcription	Adipose Nuclei	Adipose
13	chr11:85855000-85862000	Weak transcription	Primary T helper cells fromperipheralblood	blood
14	chr11:85855800-85862200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr11:85856000-85861800	Weak transcription	GM12878-XiMat	blood
16	chr11:85856200-85859600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr11:85856200-85862200	Weak transcription	Primary hematopoietic stem cells	blood
18	chr11:85856600-85861200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr11:85856600-85862000	Weak transcription	Fetal Kidney	kidney
20	chr11:85857000-85863600	Weak transcription	Stomach Mucosa	stomach
21	chr11:85857200-85861200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
22	chr11:85857200-85861200	Weak transcription	Fetal Intestine Large	intestine
23	chr11:85857200-85862200	Weak transcription	A549	lung
24	chr11:85857400-85861400	Weak transcription	Liver	Liver
25	chr11:85857400-85861800	Weak transcription	Duodenum Mucosa	Duodenum
26	chr11:85857800-85860200	Enhancers	Breast Myoepithelial Primary Cells	Breast
27	chr11:85858000-85862200	Enhancers	Brain Hippocampus Middle	brain
28	chr11:85858200-85860200	Enhancers	Brain Inferior Temporal Lobe	brain
29	chr11:85858200-85860600	Enhancers	Ovary	ovary
30	chr11:85858200-85862400	Enhancers	Brain Cingulate Gyrus	brain
31	chr11:85858400-85861200	Weak transcription	Primary neutrophils fromperipheralblood	blood
32	chr11:85858400-85861200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr11:85858400-85861200	Weak transcription	Monocytes-CD14+_RO01746	blood
34	chr11:85858400-85862000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr11:85858400-85862200	Weak transcription	Pancreas	Pancrea
36	chr11:85858400-85862400	Weak transcription	Primary B cells from peripheral blood	blood
37	chr11:85858600-85861200	Weak transcription	Primary monocytes fromperipheralblood	blood
38	chr11:85858600-85861800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr11:85858800-85860200	Enhancers	Brain Substantia Nigra	brain
40	chr11:85859000-85860000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
41	chr11:85859000-85860000	Flanking Active TSS	K562	blood
42	chr11:85859200-85859800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr11:85859200-85860400	Enhancers	Brain Angular Gyrus	brain
44	chr11:85859200-85860600	Enhancers	Brain Anterior Caudate	brain
45	chr11:85859200-85861200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr11:85859200-85861200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr11:85859200-85861600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr11:85859400-85859800	Enhancers	ES-I3 Cell Line	embryonic stem cell
49	chr11:85859400-85859800	Enhancers	HUES6 Cell Line	embryonic stem cell
50	chr11:85859400-85859800	Enhancers	Fetal Intestine Small	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links