Variant report

Variant	rs72903956
Chromosome Location	chr18:39144764-39144765
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RIT2-2	chr18:39144763-39144862	ENSG00000267313.2

Extended variants
information (count: 79 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs12968299	1.00[ASN][1000 genomes]
rs17597349	1.00[ASN][1000 genomes]
rs17656030	1.00[ASN][1000 genomes]
rs1942072	1.00[ASN][1000 genomes]
rs2587614	1.00[ASN][1000 genomes]
rs2587617	1.00[ASN][1000 genomes]
rs2587630	1.00[ASN][1000 genomes]
rs2587631	1.00[ASN][1000 genomes]
rs2587640	1.00[ASN][1000 genomes]
rs2587641	1.00[ASN][1000 genomes]
rs2587643	1.00[ASN][1000 genomes]
rs2587644	1.00[ASN][1000 genomes]
rs2587645	1.00[ASN][1000 genomes]
rs2587646	1.00[ASN][1000 genomes]
rs2587647	1.00[ASN][1000 genomes]
rs2612320	1.00[ASN][1000 genomes]
rs2612321	1.00[ASN][1000 genomes]
rs2612322	1.00[ASN][1000 genomes]
rs2612337	1.00[ASN][1000 genomes]
rs2612341	1.00[ASN][1000 genomes]
rs2612345	1.00[ASN][1000 genomes]
rs2612346	1.00[ASN][1000 genomes]
rs2612347	1.00[ASN][1000 genomes]
rs2612349	1.00[ASN][1000 genomes]
rs2612350	1.00[ASN][1000 genomes]
rs2612351	1.00[ASN][1000 genomes]
rs2703169	1.00[ASN][1000 genomes]
rs2703170	1.00[ASN][1000 genomes]
rs2848747	1.00[ASN][1000 genomes]
rs2848748	1.00[ASN][1000 genomes]
rs2848757	1.00[ASN][1000 genomes]
rs2848769	1.00[ASN][1000 genomes]
rs34177537	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34817685	1.00[ASN][1000 genomes]
rs4404160	1.00[ASN][1000 genomes]
rs55891807	1.00[ASN][1000 genomes]
rs56274716	1.00[ASN][1000 genomes]
rs56324213	1.00[ASN][1000 genomes]
rs66555927	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs66959060	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7238489	1.00[ASN][1000 genomes]
rs7238895	1.00[ASN][1000 genomes]
rs7244165	1.00[ASN][1000 genomes]
rs72892179	1.00[ASN][1000 genomes]
rs72903960	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72903968	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72903976	1.00[ASN][1000 genomes]
rs72903977	1.00[ASN][1000 genomes]
rs72903981	1.00[ASN][1000 genomes]
rs72903999	1.00[ASN][1000 genomes]
rs72905909	1.00[ASN][1000 genomes]
rs72905919	1.00[ASN][1000 genomes]
rs72905927	1.00[ASN][1000 genomes]
rs72905935	1.00[ASN][1000 genomes]
rs72905937	1.00[ASN][1000 genomes]
rs72905973	1.00[ASN][1000 genomes]
rs72905981	1.00[ASN][1000 genomes]
rs72905986	1.00[ASN][1000 genomes]
rs72905989	1.00[ASN][1000 genomes]
rs72907804	1.00[ASN][1000 genomes]
rs72907808	1.00[ASN][1000 genomes]
rs72907817	1.00[ASN][1000 genomes]
rs72907821	1.00[ASN][1000 genomes]
rs72907842	1.00[ASN][1000 genomes]
rs72907845	1.00[ASN][1000 genomes]
rs72907847	1.00[ASN][1000 genomes]
rs72907850	1.00[ASN][1000 genomes]
rs72907851	1.00[ASN][1000 genomes]
rs72907853	1.00[ASN][1000 genomes]
rs72907854	1.00[ASN][1000 genomes]
rs72907855	1.00[ASN][1000 genomes]
rs72909919	1.00[ASN][1000 genomes]
rs8098315	1.00[ASN][1000 genomes]
rs8098394	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv909564	chr18:38739067-39179256	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv1066869	chr18:38742896-39680723	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv543685	chr18:38742896-39680723	Flanking Active TSS Enhancers Genic enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	nsv2267	chr18:39123940-39169583	Enhancers Weak transcription Strong transcription Flanking Active TSS	lncRNA	n/a	inside rSNPs	diseases
5	nsv949609	chr18:39126941-40070286	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:39138800-39150000	Weak transcription	HUES64 Cell Line	embryonic stem cell
2	chr18:39139000-39149200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr18:39139000-39156800	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr18:39139600-39145000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr18:39142600-39156600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr18:39144000-39155800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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