Variant report
Variant | rs2097628 |
---|---|
Chromosome Location | chr9:136519702-136519703 |
allele | C/T |
Outlinks | Ensembl   UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:4)
- LncRNA region (count:2)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
No data |
No data |
(count:4 , 50 per page) page:
1
No. | Distal block | Cell Line | Cell type | Cell Stage |
---|---|---|---|---|
1 | chr9:136514740..136517614-chr9:136519360..136521535,2 | K562 | blood: | |
2 | chr9:136508750..136511596-chr9:136514989..136519879,4 | K562 | blood: | |
3 | chr9:136518974..136521399-chr9:136523004..136525968,3 | K562 | blood: | |
4 | chr9:136518974..136520647-chr9:136523004..136525968,2 | K562 | blood: |
(count:2 , 50 per page) page:
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No. | lncRNA name | Chromosome Location | lncRNA alias |
---|---|---|---|
1 | lnc-SARDH-1 | chr9:136519271-136521659 | NONHSAT135332 |
2 | lnc-SARDH-1 | chr9:136519317-136521659 | NONHSAT135333 |
No data |
No data |
No data |
rs_ID | r2[population] |
---|---|
rs10761412 | 0.91[EUR][1000 genomes] |
rs2073833 | 1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[YRI][hapmap];0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[ASN][1000 genomes] |
rs2097629 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap] |
rs732833 | 0.82[ASW][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];0.83[MEX][hapmap];0.89[MKK][hapmap];0.95[TSI][hapmap];0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[ASN][1000 genomes] |
rs7855248 | 0.89[EUR][1000 genomes] |
rs7871224 | 0.90[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page:
1
No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
---|---|---|---|---|---|---|---|
1 | nsv894081 | chr9:136227260-136678954 | Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 43 gene(s) | inside rSNPs | diseases |
2 | nsv894086 | chr9:136281753-136657960 | Weak transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 34 gene(s) | inside rSNPs | diseases |
3 | nsv894094 | chr9:136311679-136528721 | Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 27 gene(s) | inside rSNPs | diseases |
4 | nsv530972 | chr9:136324358-136643044 | Weak transcription Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 30 gene(s) | inside rSNPs | diseases |
5 | nsv894100 | chr9:136371224-136547602 | Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 15 gene(s) | inside rSNPs | diseases |
6 | nsv870051 | chr9:136459745-136656889 | Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 14 gene(s) | inside rSNPs | diseases |
7 | nsv894106 | chr9:136489539-136566959 | Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
8 | nsv894107 | chr9:136494566-136579589 | Enhancers Bivalent Enhancer Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 8 gene(s) | inside rSNPs | diseases |
9 | nsv466618 | chr9:136504598-136519702 | Bivalent Enhancer Enhancers Genic enhancers Bivalent/Poised TSS Weak transcription ZNF genes & repeats | Chromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
10 | nsv615639 | chr9:136504598-136519702 | Bivalent Enhancer Enhancers Bivalent/Poised TSS Weak transcription Genic enhancers ZNF genes & repeats | Chromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
11 | nsv894108 | chr9:136507473-136617292 | Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 9 gene(s) | inside rSNPs | diseases |
12 | nsv894109 | chr9:136512515-136522985 | Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
13 | nsv894110 | chr9:136512515-136542868 | Weak transcription Bivalent Enhancer Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Active TSS Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
14 | nsv466619 | chr9:136515297-136528721 | Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Bivalent/Poised TSS Weak transcription Active TSS Strong transcription Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
15 | nsv615640 | chr9:136515297-136528721 | Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Strong transcription Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
SNP | Gene | Cis/trans | Tissue | Source |
---|---|---|---|---|
rs2097628 | DNAJB7 | cis | Liver | GTEx |
rs2097628 | H2BFWT | trans | multi-tissue | Pritchard |
rs2097628 | PHLDB2 | trans | multi-tissue | Pritchard |
rs2097628 | TRA2A | cis | Liver | GTEx |
rs2097628 | C6orf59 | trans | multi-tissue | Pritchard |
rs2097628 | MAP3K9 | trans | multi-tissue | Pritchard |
rs2097628 | PLCXD2 | cis | Liver | GTEx |
rs2097628 | KCNJ5 | trans | multi-tissue | Pritchard |
rs2097628 | PXMP4 | cis | Liver | GTEx |
rs2097628 | U96191 | trans | multi-tissue | Pritchard |
rs2097628 | ANKRD19 | trans | multi-tissue | Pritchard |
rs2097628 | PPP3CB | cis | Liver | GTEx |
rs2097628 | XM_097065 | trans | multi-tissue | Pritchard |
rs2097628 | NM_182702 | trans | multi-tissue | Pritchard |
rs2097628 | PDLIM2 | cis | Liver | GTEx |
rs2097628 | FAM13A | cis | Liver | GTEx |
rs2097628 | H2BFWT | cis | Liver | GTEx |
rs2097628 | MAP3K9 | cis | Liver | GTEx |
rs2097628 | AK095323 | trans | multi-tissue | Pritchard |
rs2097628 | SCXA | cis | Liver | GTEx |
rs2097628 | CACNA1C | cis | Liver | GTEx |
rs2097628 | ATP13A1 | cis | Liver | GTEx |
rs2097628 | KCNJ5 | cis | Liver | GTEx |
rs2097628 | AL049355 | trans | multi-tissue | Pritchard |
rs2097628 | AF086014 | trans | multi-tissue | Pritchard |
rs2097628 | AK093746 | trans | multi-tissue | Pritchard |
rs2097628 | GFI1B | cis | cerebellum | SCAN |
rs2097628 | PPP3CB | trans | multi-tissue | Pritchard |
rs2097628 | RAPGEF1 | cis | multi-tissue | Pritchard |
rs2097628 | BAT2L1 | cis | cerebellum | SCAN |
rs2097628 | HSS00054207 | trans | multi-tissue | Pritchard |
rs2097628 | Contig58333 | trans | multi-tissue | Pritchard |
rs2097628 | CAMSAP1 | cis | cerebellum | SCAN |
rs2097628 | ATP13A1 | trans | multi-tissue | Pritchard |
rs2097628 | ELP4 | cis | Liver | GTEx |
rs2097628 | HSS00341785 | trans | multi-tissue | Pritchard |
rs2097628 | hCG_1981531 | cis | Liver | GTEx |
rs2097628 | HSS00136308 | trans | multi-tissue | Pritchard |
rs2097628 | Contig27934_RC | trans | multi-tissue | Pritchard |
rs2097628 | HSS00006154 | trans | multi-tissue | Pritchard |
rs2097628 | BC038744 | trans | multi-tissue | Pritchard |
rs2097628 | hCT1959479.1 | trans | multi-tissue | Pritchard |
rs2097628 | C6orf59 | cis | Liver | GTEx |
rs2097628 | DNAJB7 | trans | multi-tissue | Pritchard |
rs2097628 | BARHL1 | cis | multi-tissue | Pritchard |
rs2097628 | XM_115202 | trans | multi-tissue | Pritchard |
rs2097628 | LOC643276 | cis | Liver | GTEx |
rs2097628 | ANKRD19 | cis | Liver | GTEx |
rs2097628 | ELP4 | trans | multi-tissue | Pritchard |
rs2097628 | TESSP2 | cis | Liver | GTEx |
rs2097628 | NCRNA00118 | cis | Liver | GTEx |
rs2097628 | PER2 | cis | Liver | GTEx |
rs2097628 | CEL | cis | cerebellum | SCAN |
rs2097628 | LYSMD4 | cis | Liver | GTEx |
rs2097628 | LYSMD4 | trans | multi-tissue | Pritchard |
rs2097628 | hCT1647162.3 | trans | multi-tissue | Pritchard |
rs2097628 | PDLIM2 | trans | multi-tissue | Pritchard |
rs2097628 | hCT2270530 | trans | multi-tissue | Pritchard |
rs2097628 | HSS00264591 | trans | multi-tissue | Pritchard |
rs2097628 | PTGFR | trans | multi-tissue | Pritchard |
rs2097628 | ENST00000285726 | trans | multi-tissue | Pritchard |
rs2097628 | NCKAP5 | cis | Liver | GTEx |
rs2097628 | PTGFR | cis | Liver | GTEx |
rs2097628 | HSS00046131 | trans | multi-tissue | Pritchard |
rs2097628 | LOC100129260 | cis | Liver | GTEx |
No. | Chromosome Location | Chromatin state | Cell line | Tissue |
---|---|---|---|---|
1 | chr9:136515000-136523400 | Weak transcription | Spleen | Spleen |
2 | chr9:136517200-136520000 | Weak transcription | iPS DF 19.11 Cell Line | embryonic stem cell |
3 | chr9:136519600-136520200 | Enhancers | Breast Myoepithelial Primary Cells | Breast |
4 | chr9:136519600-136521200 | Enhancers | Primary T cells from cord blood | blood |