Variant report

Variant	rs9540981
Chromosome Location	chr13:67624859-67624860
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs1023033	0.87[CHB][hapmap];0.91[CHD][hapmap]
rs12875136	0.86[ASN][1000 genomes]
rs1927826	0.93[MEX][hapmap]
rs2181753	0.90[CHB][hapmap];0.85[ASN][1000 genomes]
rs260152	0.81[CEU][hapmap];0.81[CHD][hapmap];0.93[MEX][hapmap];0.80[TSI][hapmap]
rs260153	0.86[CEU][hapmap];0.81[EUR][1000 genomes]
rs4142274	0.95[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7327414	0.86[JPT][hapmap]
rs9317638	0.84[CEU][hapmap];0.91[JPT][hapmap]
rs9529165	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9529172	0.86[ASN][1000 genomes]
rs9529175	0.95[CHB][hapmap];0.95[CHD][hapmap];0.82[YRI][hapmap];0.88[ASN][1000 genomes]
rs9529179	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9540973	0.91[CHB][hapmap];0.85[ASN][1000 genomes]
rs9540985	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9571716	0.93[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:13 , 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	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
5	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
6	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
7	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
8	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
9	nsv430581	chr13:67572850-67762288	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
10	nsv430582	chr13:67589898-67762299	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
11	nsv1037217	chr13:67589937-67728156	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
12	nsv1039600	chr13:67593961-67726047	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
13	nsv541823	chr13:67593961-67726047	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:67616600-67625400	Enhancers	Brain Cingulate Gyrus	brain
2	chr13:67619800-67625000	Enhancers	Fetal Lung	lung
3	chr13:67621000-67626600	Enhancers	Brain Hippocampus Middle	brain
4	chr13:67621200-67625400	Enhancers	Brain Substantia Nigra	brain
5	chr13:67622200-67625400	Enhancers	Brain Inferior Temporal Lobe	brain
6	chr13:67622400-67631400	Weak transcription	Psoas Muscle	Psoas
7	chr13:67623000-67625000	Weak transcription	Fetal Brain Male	brain
8	chr13:67623000-67625400	Enhancers	Brain Angular Gyrus	brain
9	chr13:67623000-67626600	Weak transcription	Fetal Brain Female	brain
10	chr13:67623200-67636000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr13:67623600-67627000	Weak transcription	A549	lung
12	chr13:67624200-67625600	Enhancers	Brain Anterior Caudate	brain
13	chr13:67624800-67625000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr13:67624800-67626200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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