Variant report

Variant	rs958743
Chromosome Location	chr13:67549801-67549802
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	EP300	chr13:67548586-67550109	SK-N-SH	brain:	n/a	chr13:67549144-67549154 chr13:67549730-67549744

Variant related genes	Relation type
PCDH9-AS3	TF binding region

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs1041025	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1172965	1.00[AMR][1000 genomes]
rs1172966	1.00[AMR][1000 genomes]
rs1185467	1.00[AMR][1000 genomes]
rs1323921	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1323924	1.00[YRI][hapmap]
rs1323925	1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1323928	1.00[AMR][1000 genomes]
rs1441997	1.00[AMR][1000 genomes]
rs1442000	1.00[AMR][1000 genomes]
rs1442007	1.00[AMR][1000 genomes]
rs155017	1.00[AMR][1000 genomes]
rs155018	1.00[AMR][1000 genomes]
rs166335	1.00[AMR][1000 genomes]
rs166349	1.00[AMR][1000 genomes]
rs169001	1.00[AMR][1000 genomes]
rs187756	1.00[AMR][1000 genomes]
rs192322	1.00[AMR][1000 genomes]
rs2038721	1.00[AMR][1000 genomes]
rs2149320	1.00[AMR][1000 genomes]
rs2181755	1.00[AMR][1000 genomes]
rs2181881	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2181882	1.00[AMR][1000 genomes]
rs2324989	1.00[AMR][1000 genomes]
rs2325021	1.00[AMR][1000 genomes]
rs260127	1.00[AMR][1000 genomes]
rs260128	1.00[AMR][1000 genomes]
rs260129	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs260132	1.00[AMR][1000 genomes]
rs260133	1.00[AMR][1000 genomes]
rs260134	1.00[AMR][1000 genomes]
rs260135	1.00[AMR][1000 genomes]
rs260137	1.00[AMR][1000 genomes]
rs260151	1.00[AMR][1000 genomes]
rs260158	1.00[AMR][1000 genomes]
rs260159	1.00[AMR][1000 genomes]
rs260163	1.00[AMR][1000 genomes]
rs260171	1.00[AMR][1000 genomes]
rs2875515	1.00[AMR][1000 genomes]
rs4883791	1.00[AMR][1000 genomes]
rs4884703	1.00[AMR][1000 genomes]
rs4884709	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4884710	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4884711	1.00[AMR][1000 genomes]
rs6562477	1.00[AMR][1000 genomes]
rs6562479	1.00[AMR][1000 genomes]
rs6562480	1.00[AMR][1000 genomes]
rs7318303	1.00[AMR][1000 genomes]
rs7322333	1.00[AMR][1000 genomes]
rs7322354	1.00[AMR][1000 genomes]
rs7328555	1.00[AMR][1000 genomes]
rs7984929	1.00[AMR][1000 genomes]
rs7986118	1.00[AMR][1000 genomes]
rs7986616	1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7986875	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7988442	1.00[AMR][1000 genomes]
rs7997315	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8000196	1.00[AMR][1000 genomes]
rs9540962	1.00[AMR][1000 genomes]
rs9540963	1.00[AMR][1000 genomes]
rs958503	1.00[AMR][1000 genomes]
rs9599166	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs974880	1.00[AMR][1000 genomes]
rs974881	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530605	chr13:67126136-67697306	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1035741	chr13:67212973-68077950	Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv541817	chr13:67212973-68077950	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv900407	chr13:67434161-67603745	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv832640	chr13:67460304-67635966	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv428604	chr13:67480426-67645030	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv900412	chr13:67512877-67572221	Flanking Active TSS Enhancers Active TSS Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv900413	chr13:67515590-67550301	Weak transcription Enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv900414	chr13:67515590-67701341	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
10	nsv1045093	chr13:67517932-67693875	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
11	nsv541821	chr13:67517932-67693875	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:67545400-67551000	Weak transcription	Brain Angular Gyrus	brain
2	chr13:67545400-67551400	Weak transcription	Brain Hippocampus Middle	brain
3	chr13:67545400-67551400	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr13:67545600-67551400	Weak transcription	Brain Substantia Nigra	brain
5	chr13:67545800-67551400	Weak transcription	Brain Cingulate Gyrus	brain

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