Variant report

Variant	rs55760657
Chromosome Location	chr1:184642602-184642603
allele	C/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:1)
LncRNA
region (count:1)
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	CREB1	chr1:184642412-184642829	H1-hESC	embryonic stem cell:	n/a	n/a
2	MAFK	chr1:184642433-184642695	H1-hESC	embryonic stem cell:	n/a	n/a
3	EP300	chr1:184642374-184642799	H1-hESC	embryonic stem cell:	n/a	n/a
4	CEBPB	chr1:184642597-184642911	H1-hESC	embryonic stem cell:	n/a	n/a
5	CREB1	chr1:184642366-184642847	H1-hESC	embryonic stem cell:	n/a	n/a
6	JUND	chr1:184642414-184642698	H1-hESC	embryonic stem cell:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:184641175..184643659-chr1:184651481..184653037,2	MCF-7	breast:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C1orf21-1	chr1:184642494-184642635	NONHSAT008394

No data

Variant related genes	Relation type
ENSG00000252790	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]
rs10489697	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10797985	0.83[EUR][1000 genomes]
rs10911628	0.83[EUR][1000 genomes]
rs10911637	0.88[AMR][1000 genomes]
rs12060621	0.88[AMR][1000 genomes]
rs12067111	0.88[AMR][1000 genomes]
rs12094196	0.88[AMR][1000 genomes]
rs12096214	0.88[AMR][1000 genomes]
rs16823413	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs16823421	0.94[AMR][1000 genomes]
rs16823429	0.94[AMR][1000 genomes]
rs2224092	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs55896922	0.83[AMR][1000 genomes]
rs56741490	0.94[AMR][1000 genomes]
rs58465130	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs59085958	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs59347366	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs59634722	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59862212	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs61022402	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs61823870	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61823871	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61823873	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61823876	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61823879	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs61823880	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs61823882	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs61823885	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs61823891	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs61823908	0.94[AMR][1000 genomes];0.82[EUR][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	esv2756618	chr1:184393343-184674343	Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv1001323	chr1:184525419-185315876	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
3	nsv535222	chr1:184525419-185315876	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
4	nsv832037	chr1:184568194-184756597	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:184636400-184643200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
2	chr1:184638000-184642800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr1:184638800-184643200	Enhancers	HUES6 Cell Line	embryonic stem cell
4	chr1:184638800-184643600	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr1:184641400-184643800	Enhancers	H1 Cell Line	embryonic stem cell
6	chr1:184641400-184672800	Weak transcription	Gastric	stomach
7	chr1:184641600-184642800	Enhancers	iPS-18 Cell Line	embryonic stem cell
8	chr1:184641800-184643000	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr1:184642400-184643000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
10	chr1:184642400-184643200	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
11	chr1:184642400-184643400	Enhancers	iPS-15b Cell Line	embryonic stem cell
12	chr1:184642600-184643000	Active TSS	iPS-20b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links