Variant report

Variant	rs9821257
Chromosome Location	chr3:24059208-24059209
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 6 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs1112195	0.81[AFR][1000 genomes]
rs11709614	0.87[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533980	chr3:23445901-24311972	ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv834638	chr3:23963860-24117191	Enhancers Weak transcription Active TSS Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv834639	chr3:24037113-24233925	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
4	nsv536523	chr3:24041166-24076110	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9821257	NR1D2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24046400-24060200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr3:24053600-24065000	Weak transcription	Psoas Muscle	Psoas
3	chr3:24054600-24060200	Weak transcription	HMEC	breast
4	chr3:24055000-24060200	Weak transcription	NHEK	skin
5	chr3:24055600-24060400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr3:24058000-24060400	Enhancers	Fetal Muscle Leg	muscle
7	chr3:24058200-24060000	Enhancers	Breast Myoepithelial Primary Cells	Breast
8	chr3:24058600-24059400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr3:24058600-24059400	Enhancers	Fetal Stomach	stomach
10	chr3:24058600-24064800	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr3:24058800-24059600	Enhancers	Fetal Muscle Trunk	muscle
12	chr3:24059200-24060400	Weak transcription	Esophagus	oesophagus

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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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