Variant report

Variant	rs10838651
Chromosome Location	chr11:47065072-47065073
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs34942378	1.00[AFR][1000 genomes]
rs7101470	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs71474196	0.89[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043108	chr11:47041565-47117248	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
2	nsv312	chr11:47047247-47072397	Weak transcription Enhancers ZNF genes & repeats Strong transcription	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv508627	chr11:47052659-47084007	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	esv998583	chr11:47057087-47065609	Weak transcription Enhancers ZNF genes & repeats	TF binding region	1 gene(s)	inside rSNPs	diseases
5	esv3454130	chr11:47059476-47065574	Weak transcription Enhancers	TF binding region	1 gene(s)	inside rSNPs	diseases
6	nsv554206	chr11:47061100-47071897	Weak transcription Enhancers	TF binding region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10838651	MADD	cis	cerebellum	SCAN
rs10838651	CELF1	cis	cerebellum	SCAN
rs10838651	MADD	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:47026800-47080200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr11:47053400-47077600	Weak transcription	Primary T cells from cord blood	blood
3	chr11:47055400-47077200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr11:47055600-47077800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr11:47056400-47073600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
6	chr11:47056600-47073800	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr11:47057200-47074200	Weak transcription	Hela-S3	cervix
8	chr11:47058600-47074800	Weak transcription	Fetal Intestine Small	intestine
9	chr11:47061400-47082800	Weak transcription	Brain Angular Gyrus	brain
10	chr11:47064000-47077600	Weak transcription	Fetal Lung	lung
11	chr11:47064400-47065200	Enhancers	Fetal Stomach	stomach
12	chr11:47065000-47079000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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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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