Variant report

Variant	rs11802484
Chromosome Location	chr1:10258180-10258181
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 10 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs11510094	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11801734	1.00[ASN][1000 genomes]
rs11812055	1.00[ASN][1000 genomes]
rs11812074	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61784567	1.00[ASN][1000 genomes]
rs6541081	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6541082	1.00[ASN][1000 genomes]
rs6691645	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11802484	LZIC	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:17 , 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	chr1:10241200-10259000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr1:10250000-10261000	Weak transcription	Fetal Muscle Trunk	muscle
5	chr1:10250000-10269800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr1:10254800-10258200	Weak transcription	NHDF-Ad	bronchial
7	chr1:10256800-10258400	Enhancers	NH-A	brain
8	chr1:10256800-10258600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr1:10257400-10264200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr1:10257600-10261200	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr1:10257800-10258200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr1:10257800-10258200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr1:10257800-10258600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr1:10258000-10258200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr1:10258000-10258600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr1:10258000-10258600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr1:10258000-10258600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin

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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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