Variant report

Variant	rs10990381
Chromosome Location	chr9:105685265-105685266
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CYLC2-3	chr9:105684856-105685526	NONHSAT133769

Extended variants
information (count: 37 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10117253	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10121844	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.91[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap]
rs10512307	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10739854	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10739855	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10760921	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10760922	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10760924	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10820294	0.89[EUR][1000 genomes]
rs10820318	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10990364	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12553883	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1352979	0.89[EUR][1000 genomes]
rs1418778	0.89[EUR][1000 genomes]
rs2067711	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs28372411	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7030091	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7037875	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.91[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.87[YRI][hapmap];0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7049087	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7872777	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7875851	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs873091	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1054263	chr9:105570212-105754741	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv1053435	chr9:105594399-105733795	Weak transcription Enhancers Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv893656	chr9:105625399-105853222	Weak transcription Enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv1051059	chr9:105643281-105863176	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
5	nsv1047506	chr9:105643281-105866457	Enhancers Active TSS Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
6	esv3380213	chr9:105652399-105699426	Enhancers Weak transcription	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv917223	chr9:105658139-105868400	Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
8	nsv1053184	chr9:105658175-105860580	Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
9	nsv540186	chr9:105658175-105860580	Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
10	esv2762824	chr9:105662920-105866457	Weak transcription Enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
11	nsv1035787	chr9:105676708-105751859	Enhancers Weak transcription	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
12	esv2761549	chr9:105676720-105751862	Enhancers Weak transcription	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
13	nsv972630	chr9:105678083-105702035	Enhancers	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
14	esv3451176	chr9:105683306-105685779	Inactive region	TF binding region lncRNA	1 gene(s)	inside rSNPs	n/a
15	esv3390227	chr9:105683631-105685479	Inactive region	TF binding region lncRNA	1 gene(s)	inside rSNPs	n/a

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10990381	ANP32B	cis	cerebellum	SCAN
rs10990381	INVS	cis	cerebellum	SCAN

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
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