Variant report

Variant	rs7171799
Chromosome Location	chr15:39713143-39713144
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:11)
CpG islands
(count:0)
Chromatin interactive
region (count:0)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:11 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	TAF1	chr15:39712973-39713252	H1-hESC	embryonic stem cell:	n/a	n/a
2	POLR2A	chr15:39713033-39713232	H1-hESC	embryonic stem cell:	n/a	n/a
3	FOXA2	chr15:39712971-39713595	A549	lung:	n/a	n/a
4	EGR1	chr15:39713023-39713156	K562	blood:	n/a	n/a
5	FOXA2	chr15:39712985-39713480	A549	lung:	n/a	n/a
6	TAF1	chr15:39713060-39713417	H1-hESC	embryonic stem cell:	n/a	n/a
7	HEY1	chr15:39712976-39713239	K562	blood:	n/a	n/a
8	POLR2A	chr15:39713059-39713251	H1-hESC	embryonic stem cell:	n/a	n/a
9	FOXA1	chr15:39713073-39713368	HepG2	liver:	n/a	n/a
10	POLR2A	chr15:39712907-39713337	H1-hESC	embryonic stem cell:	n/a	n/a
11	POLR2A	chr15:39713036-39713236	H1-hESC	embryonic stem cell:	n/a	n/a

No data

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FSIP1-5	chr15:39713110-39713176	ENSG00000259345.1

No data

Variant related genes	Relation type
ENSG00000259345	TF binding region

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10520131	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11630143	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11630296	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11631131	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11631290	0.87[AFR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11631466	0.90[EUR][1000 genomes]
rs11631836	0.95[EUR][1000 genomes]
rs11634087	0.90[EUR][1000 genomes]
rs11634167	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11634541	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11634743	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11635229	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11635586	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11636438	0.90[EUR][1000 genomes]
rs11637421	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16952114	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16952143	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16952145	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16952153	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16969087	0.83[EUR][1000 genomes]
rs16969090	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16969092	0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16969119	0.90[EUR][1000 genomes]
rs17702778	0.81[EUR][1000 genomes]
rs1973175	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3960597	0.95[EUR][1000 genomes]
rs3973348	0.95[EUR][1000 genomes]
rs3973349	0.95[EUR][1000 genomes]
rs3973365	0.90[EUR][1000 genomes]
rs4603529	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4924364	0.81[EUR][1000 genomes]
rs55848083	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56313937	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56329829	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs58157051	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs58280064	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60266259	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs60313653	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60420802	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs60623717	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs60664658	0.90[EUR][1000 genomes]
rs61545963	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7165434	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7166266	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7171447	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7174276	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73393456	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73393472	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73399395	0.90[EUR][1000 genomes]
rs74010136	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8042191	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049682	chr15:39657279-40027403	Enhancers Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh 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	23 gene(s)	inside rSNPs	diseases
2	nsv542361	chr15:39657279-40027403	Weak transcription Strong transcription Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv1042824	chr15:39676039-39757222	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv542362	chr15:39676039-39757222	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	esv3373125	chr15:39691567-40061262	Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
6	nsv1052908	chr15:39692049-39750193	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv1044082	chr15:39693241-39750193	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv1036091	chr15:39699841-39750193	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:39704200-39718800	Weak transcription	Thymus	Thymus
2	chr15:39712000-39713200	Active TSS	HUES64 Cell Line	embryonic stem cell
3	chr15:39712400-39713200	Active TSS	ES-I3 Cell Line	embryonic stem cell
4	chr15:39712600-39713200	Active TSS	ES-WA7 Cell Line	embryonic stem cell
5	chr15:39712600-39713200	Active TSS	H9 Cell Line	embryonic stem cell
6	chr15:39712600-39713200	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr15:39712600-39713200	Active TSS	Duodenum Mucosa	Duodenum
8	chr15:39712600-39713400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr15:39712600-39719000	Weak transcription	Right Ventricle	heart
10	chr15:39712600-39724200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr15:39712800-39713200	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr15:39712800-39713200	Active TSS	Placenta	Placenta
13	chr15:39713000-39713200	Flanking Active TSS	H1 Cell Line	embryonic stem cell
14	chr15:39713000-39713200	Active TSS	HUES6 Cell Line	embryonic stem cell
15	chr15:39713000-39718800	Weak transcription	Primary T cells from cord blood	blood
16	chr15:39713000-39721800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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