Variant report

Variant	rs2410945
Chromosome Location	chr5:106454148-106454149
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs10043242	0.82[ASN][1000 genomes]
rs10060196	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1030172	0.82[ASN][1000 genomes]
rs1030173	0.82[ASN][1000 genomes]
rs1030174	0.82[ASN][1000 genomes]
rs10479394	0.88[ASN][1000 genomes]
rs10900898	0.84[ASN][1000 genomes]
rs11242626	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11242627	0.85[ASN][1000 genomes]
rs11949192	0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11960038	0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12522490	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12522515	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1345636	0.87[ASN][1000 genomes]
rs1345637	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1549175	0.92[ASN][1000 genomes]
rs17386596	0.82[CHB][hapmap]
rs1833606	0.83[ASN][1000 genomes]
rs2410933	0.80[ASN][1000 genomes]
rs2410935	0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2410938	0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs2410939	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2410940	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2410941	0.98[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs2410942	0.85[ASN][1000 genomes]
rs2410943	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2410944	0.85[ASN][1000 genomes]
rs2410946	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2410947	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2410948	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2410949	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2410951	0.84[ASN][1000 genomes]
rs2410952	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2898604	0.84[ASN][1000 genomes]
rs4143065	0.82[EUR][1000 genomes]
rs4245993	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4429838	0.88[ASN][1000 genomes]
rs4524495	0.85[ASN][1000 genomes]
rs4535439	0.84[ASN][1000 genomes]
rs4557390	0.88[ASN][1000 genomes]
rs4631165	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4637535	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4957530	0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4957531	0.83[ASN][1000 genomes]
rs4957685	0.88[ASN][1000 genomes]
rs4957687	0.84[ASN][1000 genomes]
rs4957688	0.84[ASN][1000 genomes]
rs4957690	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55689542	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58196349	0.85[ASN][1000 genomes]
rs6596717	0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6596719	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6596720	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6596721	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6596722	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6862257	0.83[ASN][1000 genomes]
rs6864971	0.88[ASN][1000 genomes]
rs6865431	0.85[ASN][1000 genomes]
rs6866458	0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6870023	0.89[ASN][1000 genomes]
rs6871050	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6871532	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6878038	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6884885	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6885021	0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6887291	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6888773	0.82[EUR][1000 genomes]
rs6892104	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6895080	0.84[ASN][1000 genomes]
rs7706390	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7710297	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7710569	0.82[EUR][1000 genomes]
rs7716820	0.85[ASN][1000 genomes]
rs7733658	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7736860	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][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	nsv1030118	chr5:106006097-106847949	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv823170	chr5:106326293-106673695	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv599332	chr5:106403516-106502006	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	esv2752056	chr5:106422649-106563101	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:106452000-106454800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr5:106452600-106454600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr5:106452600-106454800	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr5:106452800-106456400	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr5:106453000-106454400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr5:106453000-106455400	Weak transcription	Fetal Heart	heart
7	chr5:106453600-106454800	Enhancers	HUES6 Cell Line	embryonic stem cell
8	chr5:106453800-106454600	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
9	chr5:106453800-106456200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr5:106454000-106454400	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
11	chr5:106454000-106454600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
12	chr5:106454000-106454600	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
13	chr5:106454000-106454600	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
14	chr5:106454000-106454800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr5:106454000-106454800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr5:106454000-106454800	Enhancers	H9 Cell Line	embryonic stem cell
17	chr5:106454000-106454800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr5:106454000-106454800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr5:106454000-106454800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr5:106454000-106455000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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