Variant report

Variant	rs7848803
Chromosome Location	chr9:21231809-21231810
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-IFNA17-1	chr9:21231265-21231852	NONHSAT130375

Extended variants
information (count: 100 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:92)

rs_ID	r²[population]
rs10114358	0.92[ASN][1000 genomes]
rs10116540	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10117202	0.87[EUR][1000 genomes]
rs10120117	0.89[EUR][1000 genomes]
rs10122881	0.89[EUR][1000 genomes]
rs10124167	0.89[EUR][1000 genomes]
rs10124609	0.89[EUR][1000 genomes]
rs10738591	0.91[EUR][1000 genomes]
rs10811489	0.81[EUR][1000 genomes]
rs10811497	0.91[EUR][1000 genomes]
rs10811508	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10811509	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10811514	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10811527	0.89[EUR][1000 genomes]
rs10811529	0.89[EUR][1000 genomes]
rs10964918	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10964928	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10964929	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10964930	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10964932	0.97[EUR][1000 genomes]
rs10964933	0.97[EUR][1000 genomes]
rs10964934	0.97[EUR][1000 genomes]
rs10964943	0.92[EUR][1000 genomes]
rs10964952	0.89[EUR][1000 genomes]
rs10964957	0.88[EUR][1000 genomes]
rs10964959	0.89[EUR][1000 genomes]
rs10964961	0.89[EUR][1000 genomes]
rs1112783	0.89[EUR][1000 genomes]
rs12345537	0.81[EUR][1000 genomes]
rs12551190	0.97[EUR][1000 genomes]
rs12552812	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12553763	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12553910	0.85[EUR][1000 genomes]
rs12555749	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1330312	0.89[EUR][1000 genomes]
rs1330314	0.89[EUR][1000 genomes]
rs1330317	0.85[EUR][1000 genomes]
rs1330319	0.92[ASN][1000 genomes]
rs1330320	0.92[ASN][1000 genomes]
rs1411436	0.97[EUR][1000 genomes]
rs1411437	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs1543640	0.90[ASN][1000 genomes]
rs1590897	0.89[EUR][1000 genomes]
rs1590898	0.86[EUR][1000 genomes]
rs1831390	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs1928854	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1928855	0.96[EUR][1000 genomes]
rs1928856	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1952690	0.91[EUR][1000 genomes]
rs2007448	0.91[EUR][1000 genomes]
rs2225329	0.86[EUR][1000 genomes]
rs28437205	0.96[EUR][1000 genomes]
rs2988573	0.82[EUR][1000 genomes]
rs2990140	0.81[EUR][1000 genomes]
rs3855766	0.87[EUR][1000 genomes]
rs3955236	0.87[EUR][1000 genomes]
rs4007646	0.90[EUR][1000 genomes]
rs4112794	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4568686	0.89[EUR][1000 genomes]
rs4582643	0.84[EUR][1000 genomes]
rs4628333	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4977714	0.87[EUR][1000 genomes]
rs4978056	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4978069	0.85[EUR][1000 genomes]
rs56035072	0.90[EUR][1000 genomes]
rs57122438	0.97[EUR][1000 genomes]
rs57146220	0.97[EUR][1000 genomes]
rs57371737	0.86[EUR][1000 genomes]
rs583396	0.82[EUR][1000 genomes]
rs604762	0.82[EUR][1000 genomes]
rs612966	0.81[EUR][1000 genomes]
rs614541	0.82[EUR][1000 genomes]
rs618507	0.83[EUR][1000 genomes]
rs637700	0.82[EUR][1000 genomes]
rs6475510	0.90[EUR][1000 genomes]
rs667214	0.81[EUR][1000 genomes]
rs667635	0.81[EUR][1000 genomes]
rs681680	0.82[EUR][1000 genomes]
rs7022016	0.81[EUR][1000 genomes]
rs7024738	0.91[ASN][1000 genomes]
rs7043560	0.91[EUR][1000 genomes]
rs7046898	0.91[EUR][1000 genomes]
rs7047240	0.91[EUR][1000 genomes]
rs7047351	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73418252	0.96[EUR][1000 genomes]
rs768848	0.91[EUR][1000 genomes]
rs768849	0.91[EUR][1000 genomes]
rs7852809	0.91[EUR][1000 genomes]
rs7856345	0.89[EUR][1000 genomes]
rs7857863	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7866359	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7866640	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817218	chr9:20687769-21309177	Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv892724	chr9:20690244-21517302	Genic enhancers Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	153 gene(s)	inside rSNPs	diseases
3	nsv1032466	chr9:21052069-21243756	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv540084	chr9:21052069-21243756	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
5	nsv892734	chr9:21108817-21323089	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
6	nsv892735	chr9:21157373-21242161	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island lncRNA	12 gene(s)	inside rSNPs	diseases
7	nsv968599	chr9:21166047-21239960	Active TSS Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	TF binding region CpG island lncRNA	10 gene(s)	inside rSNPs	diseases
8	nsv1035128	chr9:21196300-21269669	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7848803	KLHL9	Cis_1M	lymphoblastoid	RTeQTL

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

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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