Variant report

Variant	rs456244
Chromosome Location	chr5:97993091-97993092
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs149247	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs150822	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs152980	0.93[ASN][1000 genomes]
rs152981	0.98[ASN][1000 genomes]
rs152982	0.98[ASN][1000 genomes]
rs152983	0.97[ASN][1000 genomes]
rs152986	0.99[ASN][1000 genomes]
rs152987	0.99[ASN][1000 genomes]
rs152990	0.99[ASN][1000 genomes]
rs159162	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1592853	0.90[EUR][1000 genomes]
rs160710	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs160711	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs160713	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs160714	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs160716	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs160720	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs162674	0.85[ASN][1000 genomes]
rs162675	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs176892	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs184143	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2112421	0.90[EUR][1000 genomes]
rs2545670	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2545692	0.89[EUR][1000 genomes]
rs2547957	0.90[EUR][1000 genomes]
rs2662244	0.85[EUR][1000 genomes]
rs294030	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs29671	0.99[ASN][1000 genomes]
rs29770	0.93[CEU][hapmap];0.86[JPT][hapmap]
rs29772	0.93[CEU][hapmap];0.86[JPT][hapmap]
rs316506	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs316508	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs316510	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs373070	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs384863	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs392132	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs403888	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs408005	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs408400	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs423108	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs426515	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs439509	0.91[EUR][1000 genomes]
rs442074	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs455749	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs455800	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs456367	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs457215	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs458154	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs459865	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs460295	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs461258	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs461548	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs462719	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs463309	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs463872	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs464246	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs465003	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs465427	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs67595117	0.89[EUR][1000 genomes]
rs981567	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	nsv1016611	chr5:97873846-98035559	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
2	nsv537816	chr5:97873846-98035559	Enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
3	nsv1029509	chr5:97888644-98040172	ZNF genes & repeats Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv882413	chr5:97918829-98022320	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv4929	chr5:97988331-98005486	Enhancers ZNF genes & repeats Weak transcription Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:97991000-97995400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr5:97991200-97995600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr5:97991400-97993600	Enhancers	HUES64 Cell Line	embryonic stem cell
4	chr5:97991400-97993600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
5	chr5:97991600-97993600	Enhancers	iPS-18 Cell Line	embryonic stem cell
6	chr5:97991800-97993200	Enhancers	HUES48 Cell Line	embryonic stem cell
7	chr5:97991800-97993600	Enhancers	HUES6 Cell Line	embryonic stem cell
8	chr5:97992000-97993200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr5:97992000-97993400	Enhancers	iPS-20b Cell Line	embryonic stem cell
10	chr5:97992000-97993600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr5:97992000-97993600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr5:97992200-97993400	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr5:97992400-97999400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr5:97992800-97994600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr5:97993000-98000000	Weak transcription	Gastric	stomach

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