Variant report

Variant	rs9288412
Chromosome Location	chr2:210686860-210686861
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10170320	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10174744	0.80[YRI][hapmap]
rs10490023	1.00[ASN][1000 genomes]
rs13412505	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13420529	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13432185	1.00[ASN][1000 genomes]
rs13432245	1.00[ASN][1000 genomes]
rs16843726	0.99[ASN][1000 genomes]
rs2286852	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2286854	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs58461898	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6435543	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6713928	0.99[ASN][1000 genomes]
rs6727260	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6727370	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6735695	0.94[ASN][1000 genomes]
rs6742553	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7581661	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9288413	1.00[CEU][hapmap];0.94[CHB][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[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	nsv3142	chr2:210660150-210705006	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
2	nsv431969	chr2:210682494-211074494	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:210678600-210688400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr2:210680000-210706800	Weak transcription	Brain Hippocampus Middle	brain
3	chr2:210682000-210769600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr2:210683000-210696000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr2:210683600-210704000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr2:210683800-210704200	Weak transcription	Brain Germinal Matrix	brain
7	chr2:210685800-210687000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr2:210685800-210708400	Weak transcription	Brain Cingulate Gyrus	brain
9	chr2:210686000-210697600	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr2:210686000-210698400	Weak transcription	Brain Anterior Caudate	brain
11	chr2:210686000-210720400	Weak transcription	Brain Angular Gyrus	brain
12	chr2:210686200-210704000	Weak transcription	Fetal Brain Female	brain
13	chr2:210686400-210694000	Weak transcription	Pancreatic Islets	Pancreatic Islet
14	chr2:210686400-210695800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr2:210686400-210703800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr2:210686400-210705200	Weak transcription	Cortex derived primary cultured neurospheres	brain

Quick Search:

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

what's new

Quick links