Variant report

Variant	rs61784566
Chromosome Location	chr1:10252185-10252186
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 25 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs11121528	0.88[ASN][1000 genomes]
rs12117765	0.88[ASN][1000 genomes]
rs12122107	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12133125	0.84[ASN][1000 genomes]
rs12733312	0.84[EUR][1000 genomes]
rs12757820	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1396	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs35111552	0.88[ASN][1000 genomes]
rs35187325	0.80[ASN][1000 genomes]
rs35830240	0.81[ASN][1000 genomes]
rs4348727	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61784572	0.82[EUR][1000 genomes]
rs61784573	0.88[ASN][1000 genomes]
rs61784574	0.86[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs61784579	0.88[ASN][1000 genomes]
rs61784580	0.82[ASN][1000 genomes]
rs6660928	0.85[EUR][1000 genomes]
rs6670208	0.86[EUR][1000 genomes]
rs6670320	0.86[EUR][1000 genomes]
rs6675036	0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv527217	chr1:10093457-10257167	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	esv2757722	chr1:10238070-10582554	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	esv2758920	chr1:10238070-10582554	Strong transcription Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
4	esv3356570	chr1:10249482-10252272	Weak transcription Enhancers Flanking Active TSS	n/a	n/a	inside rSNPs	diseases
5	esv3357571	chr1:10249482-10252272	Weak transcription Enhancers Flanking Active TSS	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs61784566	KIF1B	cis	Thyroid	GTEx

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:10233200-10258200	Weak transcription	Hela-S3	cervix
2	chr1:10236400-10258200	Weak transcription	HSMM	muscle
3	chr1:10240000-10255400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr1:10241000-10252200	Weak transcription	HepG2	liver
5	chr1:10241000-10252400	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr1:10241000-10254000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr1:10241000-10254200	Weak transcription	Brain Anterior Caudate	brain
8	chr1:10241000-10254200	Weak transcription	Brain Hippocampus Middle	brain
9	chr1:10241000-10254200	Weak transcription	Colon Smooth Muscle	Colon
10	chr1:10241000-10254600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr1:10241000-10255600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr1:10241000-10257200	Weak transcription	Ovary	ovary
13	chr1:10241000-10258000	Weak transcription	Psoas Muscle	Psoas
14	chr1:10241200-10254000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr1:10241200-10254200	Weak transcription	Brain Cingulate Gyrus	brain
16	chr1:10241200-10254200	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr1:10241200-10259000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr1:10241400-10253400	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr1:10241400-10255600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
20	chr1:10241600-10254000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr1:10241600-10254000	Weak transcription	Osteobl	bone
22	chr1:10241800-10254000	Weak transcription	Cortex derived primary cultured neurospheres	brain
23	chr1:10244200-10256800	Weak transcription	Fetal Stomach	stomach
24	chr1:10247000-10252400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
25	chr1:10247200-10252400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr1:10247200-10254200	Weak transcription	Fetal Kidney	kidney
27	chr1:10247200-10255400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr1:10248800-10253400	Weak transcription	Fetal Muscle Leg	muscle
29	chr1:10250000-10261000	Weak transcription	Fetal Muscle Trunk	muscle
30	chr1:10250000-10269800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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