Variant report

Variant	rs1515306
Chromosome Location	chr2:180439812-180439813
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:14)

rs_ID	r²[population]
rs10497542	1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[ASN][1000 genomes]
rs11885342	0.89[ASN][1000 genomes]
rs1356069	0.90[CHB][hapmap];0.81[JPT][hapmap]
rs1515310	0.84[CHB][hapmap];0.90[JPT][hapmap]
rs16866810	0.85[CHB][hapmap]
rs16866815	0.84[JPT][hapmap]
rs16866822	0.84[JPT][hapmap]
rs16866842	0.84[JPT][hapmap]
rs17818050	0.85[CHB][hapmap]
rs3106713	0.85[CHB][hapmap]
rs3106714	0.90[CHB][hapmap]
rs4894109	0.85[CHB][hapmap];0.90[JPT][hapmap]
rs73039384	0.84[ASN][1000 genomes]
rs908287	0.85[CHB][hapmap];0.84[JPT][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv521639	chr2:180439541-180443444	Weak transcription Enhancers Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1515306	HOXD10	cis	parietal	SCAN

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:180433000-180440800	Weak transcription	Gastric	stomach
2	chr2:180433000-180445600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr2:180435200-180461000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr2:180435400-180446400	Weak transcription	Fetal Kidney	kidney
5	chr2:180437600-180445200	Weak transcription	Skeletal Muscle Male	skeletal muscle
6	chr2:180439000-180441000	Enhancers	HepG2	liver
7	chr2:180439400-180443200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr2:180439400-180445000	Weak transcription	Stomach Mucosa	stomach
9	chr2:180439600-180443000	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr2:180439800-180443000	Weak transcription	Fetal Intestine Large	intestine
11	chr2:180439800-180445200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr2:180439800-180445200	Weak transcription	Fetal Lung	lung
13	chr2:180439800-180446400	Enhancers	Liver	Liver

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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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