Variant report

Variant	rs843557
Chromosome Location	chr4:121678048-121678049
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10857073	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10857074	0.85[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1397767	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.84[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1567552	0.90[YRI][hapmap];0.80[AFR][1000 genomes]
rs2102551	0.85[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2251270	0.82[AMR][1000 genomes]
rs2597553	0.95[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap]
rs2667170	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2667192	0.82[AMR][1000 genomes]
rs343173	0.83[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs343176	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs343183	0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs343191	0.85[AFR][1000 genomes];0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs4833673	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6828945	0.82[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap]
rs6846000	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs907295	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs907297	0.83[CEU][hapmap]
rs9991423	0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv879852	chr4:121108734-121768496	Enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv998094	chr4:121504565-122374203	Weak transcription Active TSS Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
3	nsv1004485	chr4:121542992-121716769	Enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv916737	chr4:121589793-121748847	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv461634	chr4:121623057-121765527	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv595334	chr4:121623057-121765527	Strong transcription Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv1013704	chr4:121657648-121791601	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs843557	PRDM5	cis	Whole Blood	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:121652600-121687000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr4:121668400-121690400	Weak transcription	Osteobl	bone
3	chr4:121671800-121684200	Weak transcription	Ovary	ovary
4	chr4:121671800-121697000	Weak transcription	Pancreas	Pancrea
5	chr4:121671800-121728600	Weak transcription	Left Ventricle	heart
6	chr4:121672000-121722400	Weak transcription	Right Ventricle	heart
7	chr4:121672400-121680800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr4:121672400-121690400	Weak transcription	Lung	lung
9	chr4:121672400-121728800	Weak transcription	Aorta	Aorta
10	chr4:121672400-121728800	Weak transcription	Fetal Stomach	stomach
11	chr4:121673000-121678200	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr4:121673000-121690200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr4:121673000-121697200	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr4:121673000-121705200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr4:121673000-121722400	Weak transcription	Fetal Muscle Leg	muscle
16	chr4:121673000-121737400	Weak transcription	Fetal Muscle Trunk	muscle
17	chr4:121673200-121685600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr4:121673200-121690400	Weak transcription	Fetal Lung	lung
19	chr4:121673400-121678200	Weak transcription	HUES6 Cell Line	embryonic stem cell
20	chr4:121673400-121690400	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr4:121673600-121692800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr4:121675200-121678800	Weak transcription	Fetal Intestine Small	intestine
23	chr4:121675400-121693000	Weak transcription	Primary neutrophils fromperipheralblood	blood
24	chr4:121676000-121680400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr4:121676200-121680400	Weak transcription	Fetal Heart	heart
26	chr4:121677000-121678200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr4:121677000-121702800	Weak transcription	Gastric	stomach
28	chr4:121677000-121707800	Weak transcription	Psoas Muscle	Psoas
29	chr4:121677200-121714000	Weak transcription	Fetal Intestine Large	intestine
30	chr4:121677200-121723400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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