Variant report

Variant	rs13199178
Chromosome Location	chr6:143975245-143975246
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:143966000..143968139-chr6:143973368..143975325,2	MCF-7	breast:

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs11755709	0.91[ASN][1000 genomes]
rs12192270	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12193892	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12197980	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12199447	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12200809	0.95[ASN][1000 genomes]
rs12524982	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12525281	0.86[ASN][1000 genomes]
rs12525974	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12527275	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12530178	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13192672	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13193972	0.91[ASN][1000 genomes]
rs13214196	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13219740	0.95[ASN][1000 genomes]
rs1539333	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17291151	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1884172	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2051009	0.82[ASN][1000 genomes]
rs2328506	0.80[AMR][1000 genomes]
rs2328507	0.82[EUR][1000 genomes]
rs34196129	0.82[EUR][1000 genomes]
rs34775537	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35286147	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs35296418	0.80[AMR][1000 genomes]
rs4424099	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs56392216	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62427376	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62427377	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6932482	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9496738	0.84[EUR][1000 genomes];0.84[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	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

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:143959000-143978400	Weak transcription	Left Ventricle	heart
2	chr6:143973000-143980600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr6:143974200-143976200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr6:143974200-143981600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr6:143974400-143975800	Weak transcription	Aorta	Aorta
6	chr6:143974400-143978800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr6:143974400-143978800	Weak transcription	Duodenum Mucosa	Duodenum
8	chr6:143974400-143980600	Weak transcription	Gastric	stomach
9	chr6:143974400-143980600	Weak transcription	Psoas Muscle	Psoas
10	chr6:143974600-143975400	Enhancers	Monocytes-CD14+_RO01746	blood
11	chr6:143974600-143976400	Weak transcription	HepG2	liver
12	chr6:143974600-143976800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr6:143974600-143984400	Weak transcription	Fetal Intestine Large	intestine
14	chr6:143974800-143978600	Weak transcription	Fetal Intestine Small	intestine
15	chr6:143975000-143980600	Weak transcription	Pancreatic Islets	Pancreatic Islet

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