Variant report
Variant | rs11229660 |
---|---|
Chromosome Location | chr11:58612844-58612845 |
allele | A/C |
Outlinks | Ensembl   UCSC |
- TF binding region (count:2)
- CpG islands (count:61)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:2 , 50 per page) page:
1
No. | Chromosome Location | Cell Line | Cell type | Cell Stage |
---|---|---|---|---|
1 | chr11:58612814-58612864 | HRPEpiC | eye: | n/a |
2 | chr11:58612814-58612864 | IMR90 | lung: | fetal |
3 | chr11:58612814-58612864 | SK-N-MC | brain: | n/a |
4 | chr11:58612814-58612864 | RPTEC | kidney: | n/a |
5 | chr11:58612814-58612864 | Jurkat | blood: | n/a |
6 | chr11:58612814-58612864 | H1-hESC | embryonic stem cell: | embryo |
7 | chr11:58612814-58612864 | ECC-1 | luminal epithelium: | n/a |
8 | chr11:58612814-58612864 | NHBE | bronchial: | n/a |
9 | chr11:58612814-58612864 | NH-A | brain: | n/a |
10 | chr11:58612814-58612864 | HRCEpiC | kidney: | n/a |
11 | chr11:58612814-58612864 | AG09309 | skin: | n/a |
12 | chr11:58612814-58612864 | HL-60 | blood: | n/a |
13 | chr11:58612814-58612864 | HNPCEpiC | eye: | n/a |
14 | chr11:58612814-58612864 | HUVEC | blood vessel: | n/a |
15 | chr11:58612814-58612864 | MCF-7 | breast: | n/a |
16 | chr11:58612814-58612864 | Hepatocyte | liver: | n/a |
17 | chr11:58612814-58612864 | SKMC | muscle: | n/a |
18 | chr11:58612814-58612864 | AoSMC | blood vessel: | n/a |
19 | chr11:58612814-58612864 | HEK293 | kidney: | embryo |
20 | chr11:58612814-58612864 | HCT-116 | colon: | n/a |
21 | chr11:58612814-58612864 | NHDF-neo | bronchial: | n/a |
22 | chr11:58612814-58612864 | HEEpiC | esophagus: | n/a |
23 | chr11:58612814-58612864 | LNCaP | prostate: | n/a |
24 | chr11:58612814-58612864 | AG04450 | lung: | fetal |
25 | chr11:58612814-58612864 | PANC-1 | pancreas: | n/a |
26 | chr11:58612814-58612864 | GM19239 | blood: | n/a |
27 | chr11:58612814-58612864 | GM06990 | blood: | n/a |
28 | chr11:58612814-58612864 | HIPEpiC | eye: | n/a |
29 | chr11:58612814-58612864 | T-47D | breast: | n/a |
30 | chr11:58612814-58612864 | HRE | kidney: | n/a |
31 | chr11:58612814-58612864 | BJ | skin: | n/a |
32 | chr11:58612814-58612864 | HepG2 | liver: | n/a |
33 | chr11:58612814-58612864 | BE2_C | brain: | n/a |
34 | chr11:58612814-58612864 | AG04449 | skin: | fetal |
35 | chr11:58612814-58612864 | SK-N-SH_RA | brain: | n/a |
36 | chr11:58612814-58612864 | Caco-2 | colon: | n/a |
37 | chr11:58612814-58612864 | GM12892 | blood: | n/a |
38 | chr11:58612814-58612864 | HPAEpiC | pulmonary alveolar: | n/a |
39 | chr11:58612814-58612864 | A549 | lung: | n/a |
40 | chr11:58612814-58612864 | AG10803 | skin: | n/a |
41 | chr11:58612814-58612864 | CMK | blood: | n/a |
42 | chr11:58612814-58612864 | HCM | heart: | n/a |
43 | chr11:58612814-58612864 | MCF10A-Er-Src | breast: | n/a |
44 | chr11:58612814-58612864 | SAEC | small airway: | n/a |
45 | chr11:58612814-58612864 | PrEC | prostate: | n/a |
46 | chr11:58612814-58612864 | HMEC | breast: | n/a |
47 | chr11:58612814-58612864 | NB4 | blood: | n/a |
48 | chr11:58612814-58612864 | AG09319 | gingival: | n/a |
49 | chr11:58612814-58612864 | U87 | brain: | n/a |
50 | chr11:58612814-58612864 | GM12878 | blood: | n/a |
No data |
No data |
No data |
No data |
Variant related genes | Relation type |
---|---|
GLYATL2 | TF binding region |
GLYATL2 | CpG island |
rs_ID | r2[population] |
---|---|
rs10501373 | 1.00[AMR][1000 genomes];0.85[EUR][1000 genomes] |
rs10750905 | 1.00[EUR][1000 genomes] |
rs10792188 | 1.00[EUR][1000 genomes] |
rs10792189 | 1.00[EUR][1000 genomes] |
rs10792203 | 1.00[EUR][1000 genomes] |
rs10896831 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes] |
rs10896846 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes] |
rs10896855 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs11229621 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes] |
rs11229624 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes] |
rs11229647 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes] |
rs11229665 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
rs11229669 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
rs11229675 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
rs11229681 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
rs11229685 | 0.81[AMR][1000 genomes] |
rs12365539 | 1.00[AMR][1000 genomes] |
rs12576002 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs1893630 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes] |
rs1938700 | 1.00[AMR][1000 genomes] |
rs1938706 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes] |
rs1938710 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes] |
rs1938712 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes] |
rs1938720 | 1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes] |
rs1938721 | 1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes] |
rs1938726 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes] |
rs1938727 | 1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes] |
rs1943275 | 1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes] |
rs1943286 | 1.00[EUR][1000 genomes] |
rs1943287 | 1.00[EUR][1000 genomes] |
rs1943288 | 1.00[EUR][1000 genomes] |
rs1943289 | 0.95[EUR][1000 genomes] |
rs1943290 | 1.00[EUR][1000 genomes] |
rs1943291 | 1.00[EUR][1000 genomes] |
rs1943292 | 1.00[EUR][1000 genomes] |
rs1943293 | 1.00[EUR][1000 genomes] |
rs1943294 | 1.00[EUR][1000 genomes] |
rs1943295 | 1.00[EUR][1000 genomes] |
rs1943296 | 1.00[EUR][1000 genomes] |
rs1943297 | 1.00[EUR][1000 genomes] |
rs1943298 | 1.00[EUR][1000 genomes] |
rs1943300 | 1.00[EUR][1000 genomes] |
rs1943301 | 0.95[EUR][1000 genomes] |
rs1943306 | 1.00[EUR][1000 genomes] |
rs2156348 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes] |
rs2156351 | 1.00[EUR][1000 genomes] |
rs2212844 | 1.00[AMR][1000 genomes];0.85[EUR][1000 genomes] |
rs2212850 | 1.00[EUR][1000 genomes] |
rs2226794 | 1.00[EUR][1000 genomes] |
rs2497369 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes] |
rs2507835 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes] |
rs2849853 | 1.00[EUR][1000 genomes] |
rs2849854 | 1.00[EUR][1000 genomes] |
rs2856259 | 1.00[EUR][1000 genomes] |
rs3020908 | 1.00[EUR][1000 genomes] |
rs3020909 | 1.00[EUR][1000 genomes] |
rs34745169 | 0.90[AMR][1000 genomes];1.00[EUR][1000 genomes] |
rs4103678 | 1.00[EUR][1000 genomes] |
rs4554906 | 1.00[AMR][1000 genomes];0.85[EUR][1000 genomes] |
rs490828 | 1.00[EUR][1000 genomes] |
rs492802 | 1.00[EUR][1000 genomes] |
rs493659 | 1.00[EUR][1000 genomes] |
rs4939237 | 1.00[EUR][1000 genomes] |
rs494174 | 1.00[AMR][1000 genomes] |
rs496601 | 1.00[EUR][1000 genomes] |
rs497348 | 1.00[EUR][1000 genomes] |
rs499891 | 1.00[CEU][hapmap];0.92[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap];0.90[AMR][1000 genomes] |
rs511857 | 1.00[AMR][1000 genomes] |
rs512832 | 1.00[EUR][1000 genomes] |
rs513590 | 1.00[EUR][1000 genomes] |
rs518089 | 1.00[EUR][1000 genomes] |
rs519043 | 1.00[EUR][1000 genomes] |
rs519256 | 1.00[EUR][1000 genomes] |
rs519310 | 1.00[EUR][1000 genomes] |
rs520075 | 1.00[AMR][1000 genomes] |
rs521781 | 0.89[EUR][1000 genomes] |
rs524689 | 0.95[EUR][1000 genomes] |
rs526640 | 0.95[EUR][1000 genomes] |
rs529734 | 0.95[EUR][1000 genomes] |
rs531737 | 0.95[EUR][1000 genomes] |
rs535234 | 1.00[EUR][1000 genomes] |
rs537098 | 1.00[EUR][1000 genomes] |
rs539085 | 1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes] |
rs540592 | 1.00[AMR][1000 genomes] |
rs542683 | 1.00[AMR][1000 genomes] |
rs545803 | 1.00[EUR][1000 genomes] |
rs547469 | 1.00[EUR][1000 genomes] |
rs547540 | 1.00[EUR][1000 genomes] |
rs549519 | 1.00[EUR][1000 genomes] |
rs550275 | 0.82[EUR][1000 genomes] |
rs552887 | 1.00[EUR][1000 genomes] |
rs557895 | 0.86[EUR][1000 genomes] |
rs558013 | 0.95[EUR][1000 genomes] |
rs558099 | 1.00[EUR][1000 genomes] |
rs558146 | 1.00[EUR][1000 genomes] |
rs558403 | 1.00[EUR][1000 genomes] |
rs561676 | 1.00[EUR][1000 genomes] |
rs563687 | 1.00[EUR][1000 genomes] |
rs564570 | 1.00[EUR][1000 genomes] |
rs567460 | 1.00[EUR][1000 genomes] |
rs574497 | 1.00[EUR][1000 genomes] |
rs576050 | 1.00[EUR][1000 genomes] |
rs587953 | 1.00[EUR][1000 genomes] |
rs591856 | 1.00[EUR][1000 genomes] |
rs592308 | 1.00[EUR][1000 genomes] |
rs598767 | 1.00[EUR][1000 genomes] |
rs599254 | 1.00[EUR][1000 genomes] |
rs600215 | 1.00[EUR][1000 genomes] |
rs600559 | 1.00[EUR][1000 genomes] |
rs608998 | 1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes] |
rs610165 | 1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes] |
rs611013 | 0.90[AMR][1000 genomes] |
rs614365 | 1.00[EUR][1000 genomes] |
rs615237 | 1.00[EUR][1000 genomes] |
rs615701 | 1.00[AMR][1000 genomes] |
rs621584 | 0.95[EUR][1000 genomes] |
rs622512 | 1.00[EUR][1000 genomes] |
rs625951 | 1.00[AMR][1000 genomes] |
rs628312 | 1.00[EUR][1000 genomes] |
rs630551 | 1.00[EUR][1000 genomes] |
rs631452 | 1.00[EUR][1000 genomes] |
rs635588 | 1.00[EUR][1000 genomes] |
rs642957 | 1.00[EUR][1000 genomes] |
rs643881 | 1.00[EUR][1000 genomes] |
rs644312 | 1.00[EUR][1000 genomes] |
rs657792 | 1.00[EUR][1000 genomes] |
rs660503 | 1.00[AMR][1000 genomes] |
rs664700 | 1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap] |
rs665148 | 0.95[EUR][1000 genomes] |
rs666476 | 1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes] |
rs667889 | 0.86[EUR][1000 genomes] |
rs668254 | 0.95[EUR][1000 genomes] |
rs673192 | 1.00[CEU][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap] |
rs675815 | 1.00[CEU][hapmap];0.92[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap];1.00[AMR][1000 genomes] |
rs678346 | 1.00[EUR][1000 genomes] |
rs678880 | 1.00[EUR][1000 genomes] |
rs679551 | 0.95[EUR][1000 genomes] |
rs680053 | 0.95[EUR][1000 genomes] |
rs680976 | 0.95[EUR][1000 genomes] |
rs682357 | 1.00[EUR][1000 genomes] |
rs682780 | 0.86[EUR][1000 genomes] |
rs7116544 | 0.96[GIH][hapmap] |

No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
---|---|---|---|---|---|---|---|
1 | nsv1050013 | chr11:58394598-59221090 | Active TSS Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 67 gene(s) | inside rSNPs | diseases |
2 | nsv948365 | chr11:58515163-59156405 | Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Strong transcription Genic enhancers Enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 59 gene(s) | inside rSNPs | diseases |
3 | nsv1048605 | chr11:58534660-58672438 | Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 10 gene(s) | inside rSNPs | diseases |
4 | nsv1045858 | chr11:58547772-58674568 | Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 9 gene(s) | inside rSNPs | diseases |
5 | nsv1052173 | chr11:58553516-58678496 | Enhancers Weak transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 9 gene(s) | inside rSNPs | diseases |
6 | nsv523481 | chr11:58553771-58632368 | Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
7 | nsv525355 | chr11:58553771-58632368 | Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
8 | esv1827788 | chr11:58595883-58636405 | Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive region | 1 gene(s) | inside rSNPs | diseases |
No data |
No. | Chromosome Location | Chromatin state | Cell line | Tissue |
---|---|---|---|---|
1 | chr11:58610800-58614200 | Enhancers | Breast Myoepithelial Primary Cells | Breast |
2 | chr11:58610800-58614600 | Enhancers | Primary hematopoietic stem cells | blood |
3 | chr11:58611600-58613200 | Enhancers | Primary hematopoietic stem cells short term culture | blood |
4 | chr11:58611600-58613400 | Flanking Active TSS | Primary hematopoietic stem cells G-CSF-mobilized Male | -- |
5 | chr11:58611800-58613200 | Enhancers | Primary monocytes fromperipheralblood | blood |
6 | chr11:58612400-58613000 | Enhancers | Primary B cells from peripheral blood | blood |
7 | chr11:58612800-58613000 | Enhancers | Primary hematopoietic stem cells G-CSF-mobilized Female | -- |