Variant report

Variant	rs10981301
Chromosome Location	chr9:99999468-99999469
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:12)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:12 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CHD1	chr9:99999459-100000012	H1-hESC	embryonic stem cell:	n/a	n/a
2	TBP	chr9:99999320-99999999	H1-hESC	embryonic stem cell:	n/a	n/a
3	IRF1	chr9:99999459-99999999	K562	blood:	n/a	n/a
4	TAF1	chr9:99999431-100000069	H1-hESC	embryonic stem cell:	n/a	n/a
5	EP300	chr9:99999142-99999558	K562	blood:	n/a	n/a
6	ZNF384	chr9:99999353-99999531	K562	blood:	n/a	n/a
7	MYC	chr9:99999432-99999990	K562	blood:	n/a	n/a
8	TBP	chr9:99999466-99999999	K562	blood:	n/a	n/a
9	RFX5	chr9:99999440-99999828	H1-hESC	embryonic stem cell:	n/a	n/a
10	NR2F2	chr9:99999430-100000101	K562	blood:	n/a	n/a
11	HEY1	chr9:99999455-99999903	HepG2	liver:	n/a	n/a
12	POLR2A	chr9:99999354-100001400	H1-hESC	embryonic stem cell:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type
1	chr9:99994939..99996604-chr9:99997527..100000515,2	MCF-7	breast:
2	chr9:99998207..100000626-chr9:100147568..100149189,2	K562	blood:
3	chr9:99995457..99997246-chr9:99998878..100000683,2	K562	blood:
4	chr9:99329436..99331023-chr9:99999393..100001023,2	K562	blood:
5	chr13:41495372..41498388-chr9:99998502..100001030,4	K562	blood:
6	chr13:41495372..41496932-chr9:99998502..100000578,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000254483	TF binding region
ENSG00000254876	TF binding region
CCDC180	TF binding region
ENSG00000255036	TF binding region
ENSG00000168852	Chromatin interaction
ENSG00000081377	Chromatin interaction
ENSG00000235494	Chromatin interaction
ENSG00000239827	Chromatin interaction

Extended variants
information (count: 79 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10114464	1.00[CEU][hapmap];0.86[CHB][hapmap]
rs10114803	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10115892	0.86[CHB][hapmap]
rs10116686	1.00[CEU][hapmap];0.86[CHB][hapmap]
rs10121540	1.00[CEU][hapmap];0.86[CHB][hapmap];0.85[JPT][hapmap]
rs10435869	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs10817175	0.81[EUR][1000 genomes]
rs10817178	0.81[EUR][1000 genomes]
rs10817179	0.81[EUR][1000 genomes]
rs10817180	0.81[EUR][1000 genomes]
rs10817181	0.81[EUR][1000 genomes]
rs10817183	0.81[EUR][1000 genomes]
rs10817192	0.81[EUR][1000 genomes]
rs10817211	0.81[EUR][1000 genomes]
rs10817263	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10817266	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10817311	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10817347	0.86[ASN][1000 genomes]
rs10817369	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs10817378	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs10980873	0.82[EUR][1000 genomes]
rs10980889	0.83[EUR][1000 genomes]
rs10980894	0.81[EUR][1000 genomes]
rs10980896	0.81[EUR][1000 genomes]
rs10980912	0.81[EUR][1000 genomes]
rs10980939	0.81[EUR][1000 genomes]
rs10981026	0.81[EUR][1000 genomes]
rs10981130	0.83[EUR][1000 genomes]
rs10981371	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10981495	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs10981569	1.00[CEU][hapmap];0.86[CHB][hapmap]
rs10981661	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs10981664	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs11787986	0.81[ASN][1000 genomes]
rs11792076	0.83[EUR][1000 genomes]
rs11792723	0.81[EUR][1000 genomes]
rs11792736	0.81[EUR][1000 genomes]
rs11794757	0.81[EUR][1000 genomes]
rs11795173	0.81[EUR][1000 genomes]
rs12235225	0.83[EUR][1000 genomes]
rs12235677	0.81[EUR][1000 genomes]
rs12237510	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12237712	0.81[EUR][1000 genomes]
rs12237849	0.83[EUR][1000 genomes]
rs12238318	0.81[EUR][1000 genomes]
rs12238604	0.86[CHB][hapmap];0.85[JPT][hapmap]
rs12238745	0.83[EUR][1000 genomes]
rs12682916	0.86[ASN][1000 genomes]
rs12686392	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1986463	0.81[EUR][1000 genomes]
rs2401383	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs28669226	0.81[ASN][1000 genomes]
rs3747500	0.85[CHB][hapmap];0.85[JPT][hapmap]
rs3747501	0.86[CHB][hapmap];0.85[JPT][hapmap]
rs3747502	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs3747505	0.86[CHB][hapmap]
rs3747509	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs3953684	0.83[EUR][1000 genomes]
rs41281914	0.83[EUR][1000 genomes]
rs4263876	0.81[EUR][1000 genomes]
rs4436243	1.00[CEU][hapmap];0.85[CHB][hapmap];0.84[JPT][hapmap]
rs57176573	0.81[EUR][1000 genomes]
rs58100566	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs60714215	0.94[EUR][1000 genomes]
rs61050463	0.81[EUR][1000 genomes]
rs7024183	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7025132	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7030763	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7042820	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73654680	0.81[EUR][1000 genomes]
rs73654686	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73654687	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7466408	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs7849353	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs7851443	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7855042	1.00[CEU][hapmap];0.86[CHB][hapmap];0.82[JPT][hapmap]
rs7858368	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931946	chr9:99895658-100005099	Bivalent/Poised TSS Strong transcription Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv893608	chr9:99906545-100005128	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:99992200-99999600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr9:99995600-99999600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr9:99995600-99999800	Weak transcription	Primary T helper cells PMA-I stimulated	--
4	chr9:99995800-99999600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr9:99995800-99999600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr9:99996000-99999600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr9:99998400-100001800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr9:99998600-100002200	Active TSS	iPS-20b Cell Line	embryonic stem cell
9	chr9:99999000-100001800	Active TSS	HUES48 Cell Line	embryonic stem cell
10	chr9:99999000-100002000	Active TSS	ES-I3 Cell Line	embryonic stem cell
11	chr9:99999000-100002000	Active TSS	HUES6 Cell Line	embryonic stem cell
12	chr9:99999200-99999600	Flanking Active TSS	HepG2	liver
13	chr9:99999200-99999800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
14	chr9:99999200-100000000	Flanking Active TSS	Dnd41	blood
15	chr9:99999200-100001800	Active TSS	H1 Cell Line	embryonic stem cell
16	chr9:99999200-100001800	Active TSS	K562	blood
17	chr9:99999200-100002000	Active TSS	HUES64 Cell Line	embryonic stem cell
18	chr9:99999400-99999600	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
19	chr9:99999400-99999600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr9:99999400-99999600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr9:99999400-99999600	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr9:99999400-99999600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
23	chr9:99999400-99999800	Flanking Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr9:99999400-99999800	Flanking Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
25	chr9:99999400-99999800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
26	chr9:99999400-99999800	Flanking Active TSS	Hela-S3	cervix
27	chr9:99999400-100000000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr9:99999400-100000800	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr9:99999400-100000800	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr9:99999400-100001000	Active TSS	Liver	Liver
31	chr9:99999400-100001400	Active TSS	iPS-15b Cell Line	embryonic stem cell
32	chr9:99999400-100001800	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr9:99999400-100001800	Active TSS	HMEC	breast
34	chr9:99999400-100002000	Active TSS	H9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links