Variant report

Variant	rs13035460
Chromosome Location	chr2:171781202-171781203
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:171774230..171778889-chr2:171780066..171784826,7	K562	blood:
2	chr2:171780184..171782064-chr2:171783769..171787050,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000115806	Chromatin interaction

Extended variants
information (count: 65 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10515934	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10803853	1.00[ASN][1000 genomes]
rs10803854	0.94[ASN][1000 genomes]
rs10930448	0.94[ASN][1000 genomes]
rs10930449	0.94[ASN][1000 genomes]
rs12151587	0.81[ASN][1000 genomes]
rs12471930	0.94[ASN][1000 genomes]
rs12612871	0.94[ASN][1000 genomes]
rs12988738	0.83[ASN][1000 genomes]
rs12996518	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13000898	0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs13001088	0.81[AMR][1000 genomes]
rs13011011	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13015226	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13026662	0.88[ASN][1000 genomes]
rs13028857	0.80[EUR][1000 genomes]
rs1529391	0.94[ASN][1000 genomes]
rs16859066	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16859081	0.85[ASN][1000 genomes]
rs17281735	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2114738	0.88[ASN][1000 genomes]
rs2195116	0.91[ASN][1000 genomes]
rs2557799	0.88[ASN][1000 genomes]
rs34004615	0.85[ASN][1000 genomes]
rs34017170	0.85[ASN][1000 genomes]
rs34330182	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34342928	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34532258	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34911788	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35123411	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35230775	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35864840	0.85[ASN][1000 genomes]
rs35890547	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35987434	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs3755125	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3770435	0.80[ASN][1000 genomes]
rs3770440	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3770441	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3770442	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3821090	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4668349	0.84[ASN][1000 genomes]
rs4668350	0.84[ASN][1000 genomes]
rs4668355	0.94[ASN][1000 genomes]
rs6433267	1.00[ASN][1000 genomes]
rs6709077	0.85[ASN][1000 genomes]
rs6714164	0.88[ASN][1000 genomes]
rs6714300	0.94[ASN][1000 genomes]
rs6715386	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6724493	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6729847	1.00[ASN][1000 genomes]
rs6734903	0.85[ASN][1000 genomes]
rs6742797	0.94[ASN][1000 genomes]
rs6743201	0.85[ASN][1000 genomes]
rs71415229	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71415231	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs71415232	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs71415233	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs731692	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs731693	0.94[ASN][1000 genomes]
rs73976229	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7560889	0.82[EUR][1000 genomes]
rs7570701	0.94[ASN][1000 genomes]
rs960222	0.81[ASN][1000 genomes]
rs965518	0.88[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv431801	chr2:171721493-171966493	ZNF genes & repeats Strong transcription Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13035460	TLK1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:171775000-171784800	Weak transcription	Skeletal Muscle Male	skeletal muscle
2	chr2:171778200-171784800	Weak transcription	Right Ventricle	heart
3	chr2:171778400-171785000	Weak transcription	Right Atrium	heart
4	chr2:171779000-171784600	Weak transcription	Fetal Heart	heart
5	chr2:171779400-171781400	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr2:171779400-171781800	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
7	chr2:171779600-171781800	ZNF genes & repeats	Dnd41	blood
8	chr2:171779600-171782800	Weak transcription	HepG2	liver
9	chr2:171780200-171781600	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
10	chr2:171781000-171784800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr2:171781200-171784400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr2:171781200-171784800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr2:171781200-171784800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr2:171781200-171784800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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