Variant report

Variant	rs2972452
Chromosome Location	chr19:38153660-38153661
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:38152810..38154502-chr19:38164409..38165992,2	MCF-7	breast:
2	chr19:38145451..38150086-chr19:38150215..38155612,4	K562	blood:

Variant related genes	Relation type
ENSG00000120784	Chromatin interaction

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10402671	0.88[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10403173	0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10408619	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10409605	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10412510	0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10417576	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10420268	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs10420552	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12459015	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12979640	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13744	0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1531549	0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs16958861	0.95[ASN][1000 genomes]
rs16958863	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1974714	0.81[ASN][1000 genomes]
rs1975937	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1975939	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs2075284	0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2287229	0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs28512414	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs2909085	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2909088	0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2909093	0.85[ASN][1000 genomes]
rs2909098	0.85[ASN][1000 genomes]
rs2909102	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2909105	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2909109	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2927739	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2927740	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2927742	0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2927746	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2927747	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2972430	0.90[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2972434	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2972437	0.81[ASN][1000 genomes]
rs2972438	0.81[ASN][1000 genomes]
rs2972439	0.81[ASN][1000 genomes]
rs2972445	0.81[ASN][1000 genomes]
rs2972446	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2972447	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2972448	0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2972458	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3101746	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs3101747	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3112433	0.87[ASN][1000 genomes]
rs3112434	0.84[ASN][1000 genomes]
rs35863684	0.88[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs3829688	0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4802024	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4802029	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4803231	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs4803233	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4803262	0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4803263	0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4803276	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs4803287	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs56151076	0.91[ASN][1000 genomes]
rs6508736	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs8100646	0.87[ASN][1000 genomes]
rs8103647	0.85[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs8110865	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9304568	0.84[ASN][1000 genomes]
rs954504	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs968073	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9749368	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9941475	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv579468	chr19:37977609-38293487	ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv949296	chr19:38034722-38763140	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 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	chr19:38147600-38153800	Weak transcription	Brain Anterior Caudate	brain
2	chr19:38147600-38155800	Weak transcription	Brain Germinal Matrix	brain
3	chr19:38147600-38156400	Weak transcription	Fetal Muscle Trunk	muscle
4	chr19:38148200-38153800	Weak transcription	Fetal Brain Female	brain
5	chr19:38149600-38153800	Weak transcription	Dnd41	blood
6	chr19:38151800-38153800	Weak transcription	Ovary	ovary
7	chr19:38152000-38169000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr19:38152800-38154000	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr19:38152800-38154600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr19:38153000-38154200	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr19:38153000-38154200	ZNF genes & repeats	Fetal Stomach	stomach
12	chr19:38153000-38154400	ZNF genes & repeats	Brain Substantia Nigra	brain
13	chr19:38153000-38154600	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
14	chr19:38153000-38155200	ZNF genes & repeats	Adipose Nuclei	Adipose
15	chr19:38153600-38154800	ZNF genes & repeats	Liver	Liver
16	chr19:38153600-38154800	ZNF genes & repeats	Brain Hippocampus Middle	brain

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