Variant report

Variant	rs6754396
Chromosome Location	chr2:168260812-168260813
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 92 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs10048770	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10166160	1.00[ASN][1000 genomes]
rs10169923	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10177399	0.86[EUR][1000 genomes]
rs10183035	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10186995	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10187544	0.89[EUR][1000 genomes]
rs10193628	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10203387	0.89[EUR][1000 genomes]
rs10205907	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10206206	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10206412	0.91[EUR][1000 genomes]
rs10803824	0.88[EUR][1000 genomes]
rs10930268	0.83[EUR][1000 genomes]
rs10930270	0.83[EUR][1000 genomes]
rs12104569	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12620530	0.81[EUR][1000 genomes]
rs12692859	0.83[EUR][1000 genomes]
rs13386818	1.00[ASN][1000 genomes]
rs13405810	0.91[EUR][1000 genomes]
rs13413030	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13419259	0.89[EUR][1000 genomes]
rs1357605	0.84[EUR][1000 genomes]
rs1357606	0.90[EUR][1000 genomes]
rs1382318	0.83[EUR][1000 genomes]
rs1403895	0.90[EUR][1000 genomes]
rs1403897	0.83[EUR][1000 genomes]
rs1403898	0.83[EUR][1000 genomes]
rs1403899	0.83[EUR][1000 genomes]
rs1478384	0.83[EUR][1000 genomes]
rs1478385	0.83[EUR][1000 genomes]
rs1523882	0.83[EUR][1000 genomes]
rs1523888	0.90[EUR][1000 genomes]
rs1568747	0.83[EUR][1000 genomes]
rs1608519	0.83[EUR][1000 genomes]
rs1608520	0.83[EUR][1000 genomes]
rs1916748	0.83[EUR][1000 genomes]
rs1916749	0.83[EUR][1000 genomes]
rs1916750	0.83[EUR][1000 genomes]
rs1916751	0.83[EUR][1000 genomes]
rs1996949	0.83[EUR][1000 genomes]
rs2030657	0.90[EUR][1000 genomes]
rs2177442	0.81[EUR][1000 genomes]
rs2222504	0.90[EUR][1000 genomes]
rs2250619	0.83[EUR][1000 genomes]
rs2617383	0.90[EUR][1000 genomes]
rs2617386	0.83[EUR][1000 genomes]
rs2617388	0.83[EUR][1000 genomes]
rs2617391	0.83[EUR][1000 genomes]
rs2617393	0.83[EUR][1000 genomes]
rs2617394	0.83[EUR][1000 genomes]
rs2617398	0.83[EUR][1000 genomes]
rs2617399	0.83[EUR][1000 genomes]
rs2689820	0.83[EUR][1000 genomes]
rs2689825	0.83[EUR][1000 genomes]
rs2689826	0.83[EUR][1000 genomes]
rs2689827	0.83[EUR][1000 genomes]
rs2689828	0.83[EUR][1000 genomes]
rs2689832	0.83[EUR][1000 genomes]
rs2689833	0.83[EUR][1000 genomes]
rs2949009	0.83[EUR][1000 genomes]
rs2949010	0.83[EUR][1000 genomes]
rs4667949	0.83[EUR][1000 genomes]
rs56875650	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57979918	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6432996	0.84[EUR][1000 genomes]
rs6720269	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6720884	0.86[EUR][1000 genomes]
rs6721252	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6721528	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6722016	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6725730	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6726976	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6729076	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6731777	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6739277	0.92[EUR][1000 genomes]
rs6747599	0.89[EUR][1000 genomes]
rs6756322	0.90[EUR][1000 genomes]
rs73023882	0.94[EUR][1000 genomes]
rs7558831	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7567369	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7576187	0.83[EUR][1000 genomes]
rs7585935	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7594125	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs899185	0.83[EUR][1000 genomes]
rs940314	0.90[EUR][1000 genomes]
rs940315	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv875378	chr2:168107491-168297961	Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
2	esv3364733	chr2:168109919-168302141	Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
3	nsv431790	chr2:168217873-168273530	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv491872	chr2:168220323-168737986	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	esv2760556	chr2:168259049-168283244	Enhancers Genic enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:168246800-168263000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr2:168254600-168261200	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr2:168259200-168261000	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr2:168260000-168261000	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
5	chr2:168260000-168261000	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
6	chr2:168260000-168263000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr2:168260200-168261600	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
8	chr2:168260400-168261200	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
9	chr2:168260400-168261600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr2:168260600-168261000	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
11	chr2:168260800-168261400	Enhancers	Fetal Brain Male	brain
12	chr2:168260800-168261600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr2:168260800-168261600	Enhancers	Fetal Brain Female	brain
14	chr2:168260800-168261800	Enhancers	Cortex derived primary cultured neurospheres	brain
15	chr2:168260800-168263000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links