Variant report

Variant	rs12197559
Chromosome Location	chr6:143964813-143964814
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11155313	1.00[CEU][hapmap];0.94[JPT][hapmap];0.92[YRI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11155314	1.00[ASW][hapmap];1.00[CEU][hapmap];0.82[GIH][hapmap];0.87[JPT][hapmap];0.97[LWK][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12192231	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12192270	1.00[CHB][hapmap];0.95[CHD][hapmap];0.87[ASN][1000 genomes]
rs12193892	0.85[ASN][1000 genomes]
rs12195857	1.00[CEU][hapmap];0.94[JPT][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12196077	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12196139	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12197980	0.87[ASN][1000 genomes]
rs12200809	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12200984	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12209146	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12209438	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12211387	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12524707	0.81[CHD][hapmap];0.88[JPT][hapmap]
rs13194278	0.83[CEU][hapmap];0.93[TSI][hapmap];0.84[EUR][1000 genomes]
rs13204654	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13213864	0.80[EUR][1000 genomes]
rs13219740	0.84[AMR][1000 genomes]
rs1338534	1.00[CEU][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2328507	0.82[CHB][hapmap]
rs7744358	0.83[CEU][hapmap];0.84[EUR][1000 genomes]
rs7760627	0.83[CEU][hapmap];0.84[EUR][1000 genomes]
rs7760733	0.83[CEU][hapmap];0.84[EUR][1000 genomes]
rs9484792	0.83[CEU][hapmap];0.93[TSI][hapmap];0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758084	chr6:143916621-144079976	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	esv2759476	chr6:143916621-144079976	Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1032369	chr6:143925374-144007513	Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv604805	chr6:143930404-144005949	Weak transcription Bivalent/Poised TSS Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv517253	chr6:143953672-143975157	Weak transcription Enhancers Active TSS Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	esv33992	chr6:143957777-143966636	Weak transcription Enhancers Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:143917000-143973600	Weak transcription	Fetal Intestine Small	intestine
2	chr6:143955800-143967200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr6:143956000-143965000	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr6:143956000-143967600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
5	chr6:143956000-143973800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr6:143959000-143965000	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr6:143959000-143968800	Weak transcription	HUES6 Cell Line	embryonic stem cell
8	chr6:143959000-143978400	Weak transcription	Left Ventricle	heart
9	chr6:143959200-143973800	Weak transcription	Right Atrium	heart
10	chr6:143961600-143969800	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr6:143962000-143965000	Weak transcription	Primary T cells from cord blood	blood
12	chr6:143962600-143968600	Weak transcription	Monocytes-CD14+_RO01746	blood
13	chr6:143964000-143974000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr6:143964600-143965400	Enhancers	iPS-18 Cell Line	embryonic stem cell
15	chr6:143964600-143969000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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