Variant report

Variant	rs660484
Chromosome Location	chr6:150727459-150727460
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs587968	0.82[EUR][1000 genomes]
rs603815	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs618914	0.88[ASN][1000 genomes]
rs646636	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs648460	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs649677	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs649744	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs651465	0.82[EUR][1000 genomes]
rs653803	0.82[EUR][1000 genomes]
rs681442	0.82[EUR][1000 genomes]
rs682518	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs683826	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9371441	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv464078	chr6:150720439-150729878	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
2	nsv604849	chr6:150720439-150729878	Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv1022455	chr6:150727247-150755933	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs660484	ZC3H12D	cis	brain	BrainEAC

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150721800-150729800	Weak transcription	Liver	Liver
2	chr6:150724800-150728600	Weak transcription	Fetal Muscle Trunk	muscle
3	chr6:150724800-150730000	Weak transcription	Left Ventricle	heart
4	chr6:150724800-150731000	Weak transcription	Lung	lung
5	chr6:150725000-150730000	Weak transcription	HMEC	breast
6	chr6:150725400-150728200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
7	chr6:150725400-150728400	Weak transcription	Fetal Lung	lung
8	chr6:150725400-150730200	Weak transcription	Fetal Heart	heart
9	chr6:150725400-150730400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr6:150725400-150731000	Weak transcription	Right Ventricle	heart
11	chr6:150725400-150733000	Weak transcription	Stomach Mucosa	stomach
12	chr6:150725600-150727600	Weak transcription	Osteobl	bone
13	chr6:150725600-150730200	Weak transcription	Fetal Kidney	kidney
14	chr6:150725600-150730400	Weak transcription	Hela-S3	cervix
15	chr6:150725600-150730600	Weak transcription	NH-A	brain
16	chr6:150725600-150731200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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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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