Variant report

Variant	rs1898593
Chromosome Location	chr4:166362750-166362751
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:166361690..166363243-chr4:166374413..166376065,2	MCF-7	breast:
2	chr4:166341842..166344662-chr4:166361837..166363651,2	K562	blood:

Extended variants
information (count: 18 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10021007	0.84[ASN][1000 genomes]
rs10222710	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10223009	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.96[TSI][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2083158	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.81[YRI][hapmap];0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2083159	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28421837	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28668614	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4690816	0.85[CEU][hapmap];0.95[CHB][hapmap];0.88[JPT][hapmap];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4691195	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4691197	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs66980054	0.80[AFR][1000 genomes]
rs6836074	0.88[MKK][hapmap]
rs6842167	0.93[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6853271	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7441041	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7663386	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7663945	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7671073	0.83[CHB][hapmap];0.87[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1898593	TKTL2	cis	cerebellum	SCAN

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:166326800-166364400	Weak transcription	Brain Germinal Matrix	brain
2	chr4:166342800-166364000	Weak transcription	HepG2	liver
3	chr4:166352600-166366400	Weak transcription	Pancreas	Pancrea
4	chr4:166359800-166363000	Enhancers	Fetal Brain Male	brain
5	chr4:166360000-166365400	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr4:166360200-166363000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr4:166360800-166363000	Enhancers	HUES6 Cell Line	embryonic stem cell
8	chr4:166361200-166362800	Enhancers	Duodenum Smooth Muscle	Duodenum
9	chr4:166361600-166362800	Enhancers	Placenta	Placenta
10	chr4:166361800-166375200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr4:166362000-166362800	Enhancers	iPS-15b Cell Line	embryonic stem cell
12	chr4:166362200-166381600	Weak transcription	Fetal Stomach	stomach
13	chr4:166362400-166362800	Enhancers	Brain Anterior Caudate	brain
14	chr4:166362400-166363400	Weak transcription	HMEC	breast
15	chr4:166362400-166367600	Weak transcription	Brain Hippocampus Middle	brain
16	chr4:166362400-166381600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr4:166362400-166382400	Weak transcription	Aorta	Aorta
18	chr4:166362400-166384600	Weak transcription	Brain Cingulate Gyrus	brain
19	chr4:166362600-166364800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr4:166362600-166370000	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr4:166362600-166379000	Weak transcription	Fetal Brain Female	brain

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