Variant report

Variant	rs10865036
Chromosome Location	chr2:100860595-100860596
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs12474386	0.83[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs2309811	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4851273	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4851274	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6542920	0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6542921	0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6737502	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6739695	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7597861	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1007777	chr2:100816913-101308914	Active TSS Enhancers Strong transcription Flanking Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
2	nsv535844	chr2:100816913-101308914	Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
3	nsv834311	chr2:100816917-100990036	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10865036	TXNDC9	cis	parietal	SCAN
rs10865036	ADRA2B	cis	cerebellum	SCAN
rs10865036	SLC9A2	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:100855200-100865600	Weak transcription	Thymus	Thymus
2	chr2:100856600-100862800	Weak transcription	Fetal Brain Male	brain
3	chr2:100857200-100862800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr2:100858000-100862800	Enhancers	Primary B cells from peripheral blood	blood
5	chr2:100858400-100867800	Enhancers	Primary B cells from cord blood	blood
6	chr2:100858600-100863000	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr2:100859400-100861600	Weak transcription	Osteobl	bone
8	chr2:100859400-100863000	Weak transcription	Right Ventricle	heart
9	chr2:100859400-100863600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr2:100859600-100861200	Weak transcription	GM12878-XiMat	blood
11	chr2:100859800-100860600	Weak transcription	Placenta	Placenta
12	chr2:100859800-100861200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr2:100859800-100862400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr2:100859800-100862400	Weak transcription	Fetal Muscle Leg	muscle
15	chr2:100859800-100864000	Weak transcription	Fetal Thymus	thymus
16	chr2:100859800-100869600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr2:100860000-100862800	Enhancers	Monocytes-CD14+_RO01746	blood
18	chr2:100860400-100862800	Weak transcription	Fetal Lung	lung

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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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