Variant report

Variant	rs1002671
Chromosome Location	chr2:40519959-40519960
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10490053	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11891800	0.97[GIH][hapmap]
rs11902975	0.89[CHB][hapmap];0.81[CHD][hapmap];0.97[GIH][hapmap];0.86[JPT][hapmap];0.91[ASN][1000 genomes]
rs12995402	0.88[CEU][hapmap];0.84[CHB][hapmap];0.88[CHD][hapmap];0.97[GIH][hapmap];0.86[JPT][hapmap];0.81[MEX][hapmap];0.95[TSI][hapmap];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13001457	0.94[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs13001473	0.88[CHB][hapmap];0.85[JPT][hapmap];0.91[ASN][1000 genomes]
rs13005761	0.95[CHB][hapmap];0.86[CHD][hapmap];0.95[GIH][hapmap];0.86[JPT][hapmap];0.93[ASN][1000 genomes]
rs13026979	0.93[ASN][1000 genomes]
rs13031392	0.88[CEU][hapmap];0.84[CHB][hapmap];0.82[GIH][hapmap];0.81[ASN][1000 genomes]
rs17025769	0.96[ASN][1000 genomes]
rs17025783	0.85[CHB][hapmap];0.91[JPT][hapmap];0.96[ASN][1000 genomes]
rs17025800	0.95[CHB][hapmap];0.86[JPT][hapmap];0.93[ASN][1000 genomes]
rs17025804	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17025810	0.88[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1990607	0.88[ASN][1000 genomes]
rs2192769	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs2192770	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2192771	0.89[CHB][hapmap];0.86[CHD][hapmap];0.87[GIH][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs2287051	0.90[CHB][hapmap];0.86[JPT][hapmap];0.91[ASN][1000 genomes]
rs2287053	0.91[ASN][1000 genomes]
rs34409901	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34512805	0.91[ASN][1000 genomes]
rs34562238	0.88[ASN][1000 genomes]
rs34609846	0.93[ASN][1000 genomes]
rs34718894	0.80[ASN][1000 genomes]
rs35042618	0.88[ASN][1000 genomes]
rs35264779	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35639785	0.91[ASN][1000 genomes]
rs35776185	0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35892964	0.91[ASN][1000 genomes]
rs35970998	0.87[ASN][1000 genomes]
rs35977357	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4952403	0.91[ASN][1000 genomes]
rs4952404	0.89[CHB][hapmap];0.86[TSI][hapmap]
rs4952603	1.00[CHB][hapmap];0.90[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];0.98[ASN][1000 genomes]
rs4952604	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs4952605	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs4952607	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs4952608	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs56707698	0.92[ASN][1000 genomes]
rs62150808	0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62150809	0.92[ASN][1000 genomes]
rs62150812	0.91[ASN][1000 genomes]
rs66566834	0.91[ASN][1000 genomes]
rs6729923	0.91[ASN][1000 genomes]
rs6730154	0.89[CHB][hapmap];0.84[CHD][hapmap];0.97[GIH][hapmap];0.86[JPT][hapmap];0.91[ASN][1000 genomes]
rs68003012	0.88[ASN][1000 genomes]
rs72796683	0.91[ASN][1000 genomes]
rs72796684	0.91[ASN][1000 genomes]
rs741287	0.84[CHB][hapmap];0.80[ASN][1000 genomes]
rs759387	0.94[CEU][hapmap];0.84[CHB][hapmap];0.87[MEX][hapmap];0.80[ASN][1000 genomes]
rs994419	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];0.92[TSI][hapmap];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs994420	0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529606	chr2:40206280-40896881	Flanking Active TSS Enhancers Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv873911	chr2:40423454-41161464	ZNF genes & repeats Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS 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	7 gene(s)	inside rSNPs	diseases
3	esv34071	chr2:40435231-40578229	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' 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	chr2:40512400-40526200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr2:40512800-40530000	Weak transcription	NHDF-Ad	bronchial
3	chr2:40515200-40527600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr2:40515200-40531400	Weak transcription	Osteobl	bone
5	chr2:40515400-40520200	Weak transcription	Colon Smooth Muscle	Colon
6	chr2:40515800-40530400	Weak transcription	Right Ventricle	heart
7	chr2:40517000-40526000	Weak transcription	Left Ventricle	heart
8	chr2:40517400-40520600	Enhancers	Fetal Heart	heart
9	chr2:40517400-40526000	Weak transcription	Stomach Smooth Muscle	stomach
10	chr2:40517600-40520000	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr2:40518200-40540600	Weak transcription	Primary monocytes fromperipheralblood	blood
12	chr2:40518400-40526000	Weak transcription	Monocytes-CD14+_RO01746	blood
13	chr2:40519400-40520200	Enhancers	Fetal Stomach	stomach
14	chr2:40519600-40520000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
15	chr2:40519600-40520400	Enhancers	Rectal Smooth Muscle	rectum
16	chr2:40519800-40527400	Weak transcription	HSMM	muscle

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