Variant report

Variant	rs9567955
Chromosome Location	chr13:48506188-48506189
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SUCLA2-2	chr13:48504290-48506757	ENSG00000260388.1

Extended variants
information (count: 141 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:139)

rs_ID	r²[population]
rs1041070	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11148100	0.90[ASN][1000 genomes]
rs11618397	0.83[ASN][1000 genomes]
rs1185727	0.84[ASN][1000 genomes]
rs1326135	0.82[ASN][1000 genomes]
rs1326136	0.83[ASN][1000 genomes]
rs1326138	0.86[ASN][1000 genomes]
rs1326139	0.86[ASN][1000 genomes]
rs1326140	0.87[ASN][1000 genomes]
rs1536301	0.80[ASN][1000 genomes]
rs1544078	0.95[ASN][1000 genomes]
rs1853929	0.86[ASN][1000 genomes]
rs1886975	0.91[ASN][1000 genomes]
rs1926089	0.83[ASN][1000 genomes]
rs2031590	0.89[ASN][1000 genomes]
rs2094194	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2148243	0.83[ASN][1000 genomes]
rs2148244	0.90[ASN][1000 genomes]
rs2148245	0.83[ASN][1000 genomes]
rs2182376	0.83[ASN][1000 genomes]
rs2296574	0.82[ASN][1000 genomes]
rs2406693	0.91[ASN][1000 genomes]
rs2406697	0.83[ASN][1000 genomes]
rs2406698	0.80[ASN][1000 genomes]
rs4245347	0.90[ASN][1000 genomes]
rs4447314	0.83[ASN][1000 genomes]
rs4522322	0.89[ASN][1000 genomes]
rs4941615	0.81[EUR][1000 genomes]
rs4941621	0.89[ASN][1000 genomes]
rs4942725	0.82[ASN][1000 genomes]
rs4942726	0.86[ASN][1000 genomes]
rs4942727	0.83[ASN][1000 genomes]
rs4942728	0.90[ASN][1000 genomes]
rs4942729	0.83[ASN][1000 genomes]
rs4942730	0.83[ASN][1000 genomes]
rs4942735	0.82[ASN][1000 genomes]
rs6561415	0.86[ASN][1000 genomes]
rs6561417	0.83[ASN][1000 genomes]
rs6561419	0.83[ASN][1000 genomes]
rs6561420	0.83[ASN][1000 genomes]
rs6561424	0.82[ASN][1000 genomes]
rs6561427	0.81[ASN][1000 genomes]
rs6561430	0.82[ASN][1000 genomes]
rs6561431	0.81[ASN][1000 genomes]
rs6561432	0.81[ASN][1000 genomes]
rs718010	0.83[ASN][1000 genomes]
rs7318770	0.89[ASN][1000 genomes]
rs7319245	0.89[ASN][1000 genomes]
rs7320366	0.85[ASN][1000 genomes]
rs7320461	0.83[ASN][1000 genomes]
rs7320759	0.83[ASN][1000 genomes]
rs7322515	0.83[ASN][1000 genomes]
rs7325189	0.87[ASN][1000 genomes]
rs7325437	0.81[ASN][1000 genomes]
rs7326889	0.91[ASN][1000 genomes]
rs7326984	0.83[ASN][1000 genomes]
rs7327730	0.83[ASN][1000 genomes]
rs7328525	0.89[ASN][1000 genomes]
rs7328537	0.89[ASN][1000 genomes]
rs7330130	0.81[ASN][1000 genomes]
rs7330913	0.82[ASN][1000 genomes]
rs7331285	0.81[ASN][1000 genomes]
rs7332304	0.81[ASN][1000 genomes]
rs7333821	0.83[ASN][1000 genomes]
rs7334207	0.83[ASN][1000 genomes]
rs7335788	0.83[ASN][1000 genomes]
rs7336972	0.97[ASN][1000 genomes]
rs7337004	0.81[ASN][1000 genomes]
rs7337744	0.82[ASN][1000 genomes]
rs7338125	0.83[ASN][1000 genomes]
rs7338373	0.81[ASN][1000 genomes]
rs7338894	0.82[ASN][1000 genomes]
rs765809	0.83[ASN][1000 genomes]
rs7985357	0.89[ASN][1000 genomes]
rs7989231	0.97[ASN][1000 genomes]
rs7990244	0.89[ASN][1000 genomes]
rs7990266	0.89[ASN][1000 genomes]
rs7990505	0.83[ASN][1000 genomes]
rs7994359	0.94[ASN][1000 genomes]
rs7996580	0.82[ASN][1000 genomes]
rs7997802	0.89[ASN][1000 genomes]
rs7998116	0.83[ASN][1000 genomes]
rs7998260	0.89[ASN][1000 genomes]
rs7998497	0.89[ASN][1000 genomes]
rs7998998	0.83[ASN][1000 genomes]
rs8000164	0.89[ASN][1000 genomes]
rs8001432	0.89[ASN][1000 genomes]
rs9316338	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9316339	0.85[ASN][1000 genomes]
rs9316343	0.89[ASN][1000 genomes]
rs9316344	0.83[ASN][1000 genomes]
rs9526417	0.87[ASN][1000 genomes]
rs9526422	0.90[ASN][1000 genomes]
rs9526423	0.83[ASN][1000 genomes]
rs9526426	0.83[ASN][1000 genomes]
rs9526429	0.82[ASN][1000 genomes]
rs9526430	0.83[ASN][1000 genomes]
rs9526433	0.89[ASN][1000 genomes]
rs9526434	0.81[ASN][1000 genomes]
rs9534876	0.95[ASN][1000 genomes]
rs9534877	0.83[ASN][1000 genomes]
rs9534878	0.83[ASN][1000 genomes]
rs9534879	0.83[ASN][1000 genomes]
rs9534880	0.83[ASN][1000 genomes]
rs9534882	0.83[ASN][1000 genomes]
rs9534885	0.83[ASN][1000 genomes]
rs9534889	0.83[ASN][1000 genomes]
rs9534892	0.82[ASN][1000 genomes]
rs9534896	0.81[ASN][1000 genomes]
rs9534898	0.82[ASN][1000 genomes]
rs9534901	0.82[ASN][1000 genomes]
rs9534903	0.89[ASN][1000 genomes]
rs9534904	0.83[ASN][1000 genomes]
rs9534905	0.83[ASN][1000 genomes]
rs9534906	0.83[ASN][1000 genomes]
rs9534907	0.89[ASN][1000 genomes]
rs9534908	0.83[ASN][1000 genomes]
rs9534909	0.81[ASN][1000 genomes]
rs9534912	0.83[ASN][1000 genomes]
rs9534913	0.89[ASN][1000 genomes]
rs9534923	0.87[ASN][1000 genomes]
rs9534926	0.83[ASN][1000 genomes]
rs9562773	0.85[ASN][1000 genomes]
rs9562787	0.83[ASN][1000 genomes]
rs9567942	0.85[ASN][1000 genomes]
rs9567954	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9567958	0.91[ASN][1000 genomes]
rs9567959	0.83[ASN][1000 genomes]
rs9567960	0.83[ASN][1000 genomes]
rs9567963	0.83[ASN][1000 genomes]
rs9567964	0.90[ASN][1000 genomes]
rs9567972	0.82[ASN][1000 genomes]
rs9567976	0.83[ASN][1000 genomes]
rs9567980	0.83[ASN][1000 genomes]
rs9567986	0.81[ASN][1000 genomes]
rs9595815	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9595825	0.83[ASN][1000 genomes]
rs970650	0.85[ASN][1000 genomes]
rs970651	0.82[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	nsv933980	chr13:48431000-48557419	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	esv1803690	chr13:48470681-48508091	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9567955	SUCLA2	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:48477000-48506400	Weak transcription	Psoas Muscle	Psoas
2	chr13:48492200-48510800	Weak transcription	Left Ventricle	heart
3	chr13:48495200-48506800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr13:48496600-48506600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr13:48501000-48531200	Weak transcription	Spleen	Spleen
6	chr13:48502000-48530800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr13:48502600-48507000	Weak transcription	Adipose Nuclei	Adipose
8	chr13:48502600-48513600	Weak transcription	Stomach Smooth Muscle	stomach
9	chr13:48503600-48512400	Weak transcription	Aorta	Aorta
10	chr13:48503800-48506400	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr13:48503800-48507000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr13:48503800-48507400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr13:48503800-48513200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr13:48503800-48516800	Weak transcription	NHDF-Ad	bronchial
15	chr13:48504000-48513400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr13:48505600-48506600	Weak transcription	HepG2	liver
17	chr13:48506000-48531400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood

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