Variant report

Variant	rs3842911
Chromosome Location	chr4:19696428-19696429
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs12503689	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12505351	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13103231	0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs13112830	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13143859	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13149800	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1488837	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17510833	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35380414	0.81[AFR][1000 genomes]
rs35604088	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35641970	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs36084530	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3846392	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4496580	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs71605376	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][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	nsv878733	chr4:19335464-19928602	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv461286	chr4:19488871-19709795	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv593786	chr4:19488871-19709795	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
4	nsv829873	chr4:19582263-19742515	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv829874	chr4:19635213-19781102	Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv529290	chr4:19658583-20173839	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3842911	BST1	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:19695000-19697000	Enhancers	Fetal Stomach	stomach
2	chr4:19695400-19697200	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr4:19695600-19696800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr4:19695800-19696600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr4:19695800-19696800	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr4:19695800-19696800	Enhancers	iPS-20b Cell Line	embryonic stem cell
7	chr4:19695800-19696800	Flanking Active TSS	Primary hematopoietic stem cells	blood
8	chr4:19695800-19696800	Enhancers	Ovary	ovary
9	chr4:19695800-19697000	Enhancers	Fetal Lung	lung
10	chr4:19695800-19697400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr4:19696200-19696800	Enhancers	Dnd41	blood
12	chr4:19696200-19697200	Enhancers	Primary hematopoietic stem cells short term culture	blood
13	chr4:19696200-19697400	Weak transcription	Fetal Muscle Leg	muscle
14	chr4:19696400-19697400	Enhancers	Primary B cells from cord blood	blood

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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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