Variant report

Variant	rs262119
Chromosome Location	chr6:142842793-142842794
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:61)

rs_ID	r²[population]
rs1040525	0.81[ASW][hapmap];0.89[MEX][hapmap];0.83[TSI][hapmap];0.85[EUR][1000 genomes]
rs1040526	0.84[CEU][hapmap];0.88[EUR][1000 genomes]
rs1342060	0.84[CEU][hapmap];0.84[MEX][hapmap];0.83[TSI][hapmap]
rs1360194	0.84[CEU][hapmap];0.89[MEX][hapmap];0.90[TSI][hapmap];0.89[EUR][1000 genomes]
rs1418201	0.84[CEU][hapmap];0.81[EUR][1000 genomes]
rs155259	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1891308	0.81[ASW][hapmap];0.83[CEU][hapmap];0.89[MEX][hapmap];0.86[TSI][hapmap];0.81[EUR][1000 genomes]
rs2039986	0.84[CEU][hapmap];0.81[EUR][1000 genomes]
rs2050157	0.83[CEU][hapmap];0.84[MEX][hapmap];0.86[TSI][hapmap];0.81[EUR][1000 genomes]
rs2294764	0.84[CEU][hapmap];0.89[EUR][1000 genomes]
rs2294771	0.89[EUR][1000 genomes]
rs262115	0.88[EUR][1000 genomes]
rs262121	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs262129	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs263178	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs263179	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs263180	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs263181	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs263182	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs263183	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs263184	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs263185	0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs263186	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs263187	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs263188	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs263189	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3748069	0.89[EUR][1000 genomes]
rs3817929	0.89[EUR][1000 genomes]
rs611802	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6570507	0.83[CEU][hapmap];0.86[TSI][hapmap];0.85[EUR][1000 genomes]
rs6570508	0.81[EUR][1000 genomes]
rs6570509	0.87[EUR][1000 genomes]
rs6570510	0.82[CEU][hapmap];0.89[EUR][1000 genomes]
rs6909857	0.83[CEU][hapmap];0.86[EUR][1000 genomes]
rs6929442	0.89[EUR][1000 genomes]
rs6937121	0.84[CEU][hapmap];0.81[GIH][hapmap];0.88[TSI][hapmap];0.86[EUR][1000 genomes]
rs7741741	0.81[EUR][1000 genomes]
rs7753012	0.83[TSI][hapmap]
rs7754638	0.89[EUR][1000 genomes]
rs7755109	0.81[GIH][hapmap];0.84[MEX][hapmap];0.90[TSI][hapmap];0.89[EUR][1000 genomes]
rs7756305	0.84[CEU][hapmap];0.83[TSI][hapmap]
rs7763064	0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7770386	0.88[EUR][1000 genomes]
rs7774095	0.82[EUR][1000 genomes]
rs7776375	0.88[EUR][1000 genomes]
rs9373346	0.82[CEU][hapmap];0.89[EUR][1000 genomes]
rs9389985	0.81[EUR][1000 genomes]
rs9389986	0.83[CEU][hapmap];0.82[EUR][1000 genomes]
rs9389987	0.81[EUR][1000 genomes]
rs9399401	0.83[CEU][hapmap]
rs9403380	0.81[EUR][1000 genomes]
rs9403381	0.83[CEU][hapmap];0.89[MEX][hapmap];0.83[TSI][hapmap]
rs9403382	0.84[EUR][1000 genomes]
rs9403383	0.88[TSI][hapmap];0.86[EUR][1000 genomes]
rs9403387	0.89[EUR][1000 genomes]
rs9496346	0.81[GIH][hapmap];0.83[MEX][hapmap];0.86[TSI][hapmap];0.82[EUR][1000 genomes]
rs9496369	0.86[EUR][1000 genomes]
rs9496374	0.88[EUR][1000 genomes]
rs9496392	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs962554	0.88[EUR][1000 genomes]
rs972982	0.84[CEU][hapmap];0.81[GIH][hapmap];0.86[TSI][hapmap];0.83[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	nsv949088	chr6:142561402-143128849	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1023426	chr6:142813845-142940262	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv830827	chr6:142840734-143015005	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	esv2517290	chr6:142841836-142843294	Enhancers Weak transcription	n/a	n/a	inside rSNPs	n/a

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:142839600-142843400	Weak transcription	Fetal Lung	lung
2	chr6:142840000-142843400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr6:142840400-142843200	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr6:142840600-142843200	Weak transcription	Esophagus	oesophagus
5	chr6:142840600-142846800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr6:142842600-142843600	Enhancers	Primary T cells from cord blood	blood

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