Variant report

Variant	rs16844417
Chromosome Location	chr1:172377745-172377746
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs1009802	1.00[CHD][hapmap]
rs17277372	1.00[CHD][hapmap]
rs17278379	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.90[LWK][hapmap];0.86[MEX][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2213738	1.00[CHD][hapmap]
rs4244193	1.00[CHD][hapmap]
rs4244194	1.00[CHD][hapmap]
rs4916187	1.00[CHD][hapmap]
rs72723302	0.82[AFR][1000 genomes]
rs739249	1.00[CHD][hapmap]
rs7515895	1.00[CHD][hapmap]
rs7518300	1.00[CHD][hapmap]
rs7522692	1.00[CHD][hapmap]
rs7538417	1.00[CHD][hapmap]
rs7551242	1.00[CHD][hapmap]
rs9425330	1.00[CHD][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16844417	VAMP4	cis	cerebellum	SCAN

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:172352400-172386400	Weak transcription	Psoas Muscle	Psoas
2	chr1:172368400-172390800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr1:172370200-172385600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr1:172370600-172378200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr1:172370600-172378200	Weak transcription	Fetal Kidney	kidney
6	chr1:172372800-172381600	Weak transcription	Brain Inferior Temporal Lobe	brain
7	chr1:172373000-172378200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr1:172373000-172378200	Weak transcription	Brain Cingulate Gyrus	brain
9	chr1:172373000-172390800	Weak transcription	Brain Hippocampus Middle	brain
10	chr1:172373000-172390800	Weak transcription	Brain Substantia Nigra	brain
11	chr1:172373000-172411800	Weak transcription	Brain Angular Gyrus	brain
12	chr1:172375400-172383600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr1:172375600-172378000	Weak transcription	NHEK	skin
14	chr1:172375600-172378200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr1:172377200-172384400	Weak transcription	Placenta Amnion	Placenta Amnion
16	chr1:172377400-172379800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr1:172377600-172378400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr1:172377600-172379400	Enhancers	NHDF-Ad	bronchial

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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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