Variant report

Variant	rs4797730
Chromosome Location	chr18:13178096-13178097
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 11 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs12458048	0.80[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs12957584	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35130938	0.82[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs35374422	0.80[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs4797725	0.90[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs4797728	0.84[AFR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs529954	1.00[YRI][hapmap];0.80[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs576963	0.92[YRI][hapmap]
rs59612932	0.89[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs6505782	0.86[EUR][1000 genomes]
rs7232692	0.90[AFR][1000 genomes];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1062014	chr18:12687210-13183383	Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases
2	nsv543655	chr18:12687210-13183383	Flanking Bivalent TSS/Enh Strong transcription Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases
3	nsv1057083	chr18:12916779-13207538	Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
4	nsv576524	chr18:12918318-13183609	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
5	nsv1056593	chr18:12926314-13183383	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
6	nsv1064364	chr18:12926314-13207686	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
7	nsv833591	chr18:13093777-13253748	Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
8	nsv909408	chr18:13122618-13308950	ZNF genes & repeats Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv909409	chr18:13151544-13240284	Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
10	nsv909410	chr18:13151544-13308950	Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:11)

SNP	Gene	Cis/trans	Tissue	Source
rs4797730	CEP192	cis	Nerve Tibial	GTEx
rs4797730	CEP192	Cis_1M	lymphoblastoid	RTeQTL
rs4797730	CEP192	cis	Artery Aorta	GTEx
rs4797730	CEP192	cis	Esophagus Mucosa	GTEx
rs4797730	CEP192	cis	lung	GTEx
rs4797730	CEP192	cis	Skin Sun Exposed Lower leg	GTEx
rs4797730	CEP192	cis	Stomach	GTEx
rs4797730	CEP192	cis	Artery Tibial	GTEx
rs4797730	CEP192	cis	Esophagus Muscularis	GTEx
rs4797730	CEP192	cis	Adipose Subcutaneous	GTEx
rs4797730	CEP192	cis	Thyroid	GTEx

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:13174000-13182600	Enhancers	HepG2	liver
2	chr18:13176200-13181800	Weak transcription	Gastric	stomach
3	chr18:13177000-13178600	Weak transcription	Small Intestine	intestine
4	chr18:13177200-13178600	Weak transcription	Thymus	Thymus
5	chr18:13177200-13182600	Enhancers	Fetal Intestine Large	intestine
6	chr18:13177400-13178200	Weak transcription	Colonic Mucosa	Colon
7	chr18:13177400-13178200	Weak transcription	Fetal Intestine Small	intestine
8	chr18:13177400-13179400	Enhancers	Rectal Mucosa Donor 31	rectum
9	chr18:13177400-13179800	Weak transcription	Fetal Thymus	thymus
10	chr18:13177400-13181400	Enhancers	Liver	Liver
11	chr18:13177600-13178200	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr18:13177600-13180800	Enhancers	Duodenum Mucosa	Duodenum

Quick Search:

Input of quick search could be:

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

what's new

Quick links