Variant report

Variant	rs10981278
Chromosome Location	chr9:99995270-99995271
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Variant related genes	Relation type
ENSG00000235494	TF binding region
ENSG00000197816	Chromatin interaction
ENSG00000254483	Chromatin interaction
ENSG00000254876	Chromatin interaction
ENSG00000203279	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 7 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10125824	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10759521	0.89[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs10759526	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10759527	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10817273	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12685723	0.83[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs6478025	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7858579	0.96[AFR][1000 genomes];0.88[EUR][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	nsv931946	chr9:99895658-100005099	Bivalent/Poised TSS Strong transcription Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv893607	chr9:99906545-99996548	Enhancers Bivalent/Poised TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv893608	chr9:99906545-100005128	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs10981278	VN1R51P	cis	Thyroid	GTEx
rs10981278	ANKRD18CP	cis	Thyroid	GTEx
rs10981278	CCDC180	cis	Artery Tibial	GTEx
rs10981278	RP11-498P14.5	cis	lung	GTEx
rs10981278	RP11-520B13.4	cis	Esophagus Muscularis	GTEx
rs10981278	RP11-498P14.5	cis	Thyroid	GTEx
rs10981278	RP11-520B13.4	cis	Thyroid	GTEx

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:99992200-99999600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr9:99993400-99995400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr9:99994000-99995800	Enhancers	K562	blood
4	chr9:99994200-99995600	Enhancers	HepG2	liver
5	chr9:99994200-99995800	Enhancers	ES-I3 Cell Line	embryonic stem cell
6	chr9:99994400-99995400	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr9:99994400-99995600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
8	chr9:99994600-99998200	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr9:99994600-99998400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr9:99994800-99995800	Enhancers	iPS-15b Cell Line	embryonic stem cell
11	chr9:99994800-99996000	Enhancers	HUES6 Cell Line	embryonic stem cell
12	chr9:99994800-99999000	Weak transcription	HUES64 Cell Line	embryonic stem cell
13	chr9:99995000-99995600	Enhancers	A549	lung
14	chr9:99995000-99995800	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr9:99995000-99996200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr9:99995000-99998400	Weak transcription	Dnd41	blood
17	chr9:99995200-99995600	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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