Variant report

Variant	rs1928532
Chromosome Location	chr6:45532251-45532252
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs1041334	0.97[ASN][1000 genomes]
rs10807322	0.85[EUR][1000 genomes]
rs12192817	0.89[ASN][1000 genomes]
rs12202314	0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12664797	0.86[ASN][1000 genomes]
rs16873510	0.97[ASN][1000 genomes]
rs1928529	0.83[ASN][1000 genomes]
rs1928530	0.97[ASN][1000 genomes]
rs1928531	0.95[ASN][1000 genomes]
rs2280228	0.85[EUR][1000 genomes]
rs3763191	0.86[ASN][1000 genomes]
rs6937759	0.90[EUR][1000 genomes]
rs6938450	0.87[CHB][hapmap]
rs7752324	0.88[ASN][1000 genomes]
rs7758107	0.88[ASN][1000 genomes]
rs7758317	0.91[ASN][1000 genomes]
rs9463100	0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028393	chr6:44875558-45822335	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
2	nsv538211	chr6:44875558-45822335	ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
3	nsv427755	chr6:45474631-45627025	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
4	nsv532024	chr6:45475088-45982640	Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
5	nsv1019561	chr6:45485826-45535222	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
6	nsv538214	chr6:45485826-45535222	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
7	nsv603009	chr6:45530471-45543530	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv462940	chr6:45532214-45545975	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
9	nsv603010	chr6:45532214-45545975	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1928532	YIPF3	cis	parietal	SCAN
rs1928532	C6orf138	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:45519600-45532400	Weak transcription	Right Atrium	heart
2	chr6:45522000-45536800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr6:45522200-45533800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr6:45524800-45537000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr6:45525000-45533800	Weak transcription	HSMM	muscle
6	chr6:45525000-45534600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr6:45531000-45536200	Weak transcription	Psoas Muscle	Psoas
8	chr6:45531000-45537000	Weak transcription	Ovary	ovary
9	chr6:45531000-45537200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr6:45531400-45532400	Enhancers	Fetal Heart	heart
11	chr6:45531600-45532600	Enhancers	Skeletal Muscle Male	skeletal muscle
12	chr6:45532200-45532400	Enhancers	Skeletal Muscle Female	skeletal muscle
13	chr6:45532200-45532400	Enhancers	HSMMtube	muscle
14	chr6:45532200-45532600	Enhancers	Left Ventricle	heart

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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