Variant report
Variant | rs28634956 |
---|---|
Chromosome Location | chr9:136608458-136608459 |
allele | A/G |
Outlinks | Ensembl   UCSC |
- TF binding region (count:91)
- CpG islands (count:0)
- Chromatin interactive region (count:5)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
---|---|---|---|---|---|---|
1 | SMC3 | chr9:136608049-136608482 | HepG2 | liver: | n/a | chr9:136608259-136608266 |
2 | CTCF | chr9:136608091-136608480 | MCF-7 | breast: | n/a | chr9:136608256-136608265 |
3 | RAD21 | chr9:136607872-136608819 | SK-N-SH | brain: | n/a | chr9:136608166-136608179 |
4 | CTCF | chr9:136607994-136608512 | HepG2 | liver: | n/a | chr9:136608256-136608265 |
5 | CTCF | chr9:136607975-136608588 | HepG2 | liver: | n/a | chr9:136608256-136608265 |
6 | SMC3 | chr9:136608088-136608510 | GM12878 | blood: | n/a | chr9:136608259-136608266 |
7 | CTCF | chr9:136608041-136608460 | GM12891 | blood: | n/a | chr9:136608256-136608265 |
8 | CTCF | chr9:136608063-136608461 | MCF-7 | breast: | n/a | chr9:136608256-136608265 |
9 | CTCF | chr9:136608112-136608465 | HepG2 | liver: | n/a | chr9:136608256-136608265 |
10 | ZNF143 | chr9:136608006-136608494 | H1-hESC | embryonic stem cell: | n/a | n/a |
11 | ZNF263 | chr9:136607951-136608470 | HEK293-T-REx | kidney: | n/a | n/a |
12 | CTCF | chr9:136608093-136608463 | H1-hESC | embryonic stem cell: | n/a | chr9:136608256-136608265 |
13 | CTCF | chr9:136607902-136608476 | GM19238 | blood: | n/a | chr9:136608256-136608265 |
14 | CTCF | chr9:136608001-136608653 | MCF-7 | breast: | n/a | chr9:136608256-136608265 |
15 | RAD21 | chr9:136608152-136608470 | K562 | blood: | n/a | chr9:136608166-136608179 |
16 | RAD21 | chr9:136608108-136608518 | A549 | lung: | n/a | chr9:136608166-136608179 |
17 | CTCF | chr9:136608069-136608464 | GM19240 | blood: | n/a | chr9:136608256-136608265 |
18 | CTCF | chr9:136608063-136608476 | GM12878 | blood: | n/a | chr9:136608256-136608265 |
19 | RAD21 | chr9:136608113-136608482 | K562 | blood: | n/a | chr9:136608166-136608179 |
20 | SMC3 | chr9:136607499-136608644 | SK-N-SH | brain: | n/a | chr9:136608259-136608266 |
21 | RAD21 | chr9:136607970-136608557 | HepG2 | liver: | n/a | chr9:136608166-136608179 |
22 | CTCF | chr9:136607936-136608471 | A549 | lung: | n/a | chr9:136608256-136608265 |
23 | CTCF | chr9:136607882-136608591 | K562 | blood: | n/a | chr9:136608256-136608265 |
24 | RAD21 | chr9:136607954-136608538 | MCF-7 | breast: | n/a | chr9:136608166-136608179 |
25 | RAD21 | chr9:136607937-136608532 | ECC-1 | luminal epithelium: | n/a | chr9:136608166-136608179 |
26 | RAD21 | chr9:136607985-136608523 | ECC-1 | luminal epithelium: | n/a | chr9:136608166-136608179 |
27 | RAD21 | chr9:136607868-136608589 | HCT-116 | colon: | n/a | chr9:136608166-136608179 |
28 | CTCF | chr9:136607984-136608537 | GM12878 | blood: | n/a | chr9:136608256-136608265 |
29 | RAD21 | chr9:136608064-136608593 | A549 | lung: | n/a | chr9:136608166-136608179 |
30 | CTCF | chr9:136607852-136608903 | A549 | lung: | n/a | chr9:136608256-136608265 |
31 | RAD21 | chr9:136607944-136608576 | H1-hESC | embryonic stem cell: | n/a | chr9:136608166-136608179 |
32 | BHLHE40 | chr9:136608177-136608525 | K562 | blood: | n/a | n/a |
33 | JUND | chr9:136608084-136608501 | H1-hESC | embryonic stem cell: | n/a | n/a |
34 | SP4 | chr9:136608062-136608470 | H1-hESC | embryonic stem cell: | n/a | n/a |
35 | MAX | chr9:136608066-136608561 | MCF-7 | breast: | n/a | n/a |
36 | SMC3 | chr9:136608046-136608510 | Hela-S3 | cervix: | n/a | chr9:136608259-136608266 |
37 | ZNF143 | chr9:136608060-136608474 | GM12878 | blood: | n/a | n/a |
38 | FOXP2 | chr9:136608128-136608460 | SK-N-MC | brain: | n/a | n/a |
39 | CBX3 | chr9:136608129-136608507 | K562 | blood: | n/a | n/a |
40 | CTCF | chr9:136607959-136608523 | A549 | lung: | n/a | chr9:136608256-136608265 |
41 | CTCF | chr9:136607962-136608566 | H1-hESC | embryonic stem cell: | n/a | chr9:136608256-136608265 |
42 | RAD21 | chr9:136608013-136608548 | Hela-S3 | cervix: | n/a | chr9:136608166-136608179 |
43 | CTCF | chr9:136608053-136608497 | T-47D | breast: | n/a | chr9:136608256-136608265 |
44 | CTCF | chr9:136608111-136608551 | K562 | blood: | n/a | chr9:136608256-136608265 |
45 | ARID3A | chr9:136608175-136608482 | HepG2 | liver: | n/a | n/a |
46 | CTCF | chr9:136607860-136608610 | MCF-7 | breast: | n/a | chr9:136608256-136608265 |
47 | CTCF | chr9:136608069-136608473 | MCF-7 | breast: | n/a | chr9:136608256-136608265 |
48 | MAFK | chr9:136608204-136608544 | HepG2 | liver: | n/a | n/a |
49 | RAD21 | chr9:136608049-136608516 | A549 | lung: | n/a | chr9:136608166-136608179 |
50 | SIN3A | chr9:136608095-136608525 | H1-hESC | embryonic stem cell: | n/a | n/a |
No data |
(count:5 , 50 per page) page:
1
No. | Distal block | Cell Line | Cell type | Cell Stage |
---|---|---|---|---|
1 | chr9:136607693..136608878-chr9:136859235..136860612,8 | MCF-7 | breast: | |
2 | chr9:136606898..136609884-chr9:136619797..136622653,2 | MCF-7 | breast: | |
3 | chr9:136607827..136608773-chr9:136859602..136860351,4 | MCF-7 | breast: | |
4 | chr9:136608029..136608531-chr9:136858192..136859169,2 | MCF-7 | breast: | |
5 | chr9:136608275..136608832-chr9:136966155..136966872,2 | K562 | blood: |
No data |
No data |
No data |
Variant related genes | Relation type |
---|---|
SARDH | TF binding region |
rs_ID | r2[population] |
---|---|
rs12338882 | 0.81[AFR][1000 genomes];1.00[AMR][1000 genomes] |
rs28662453 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:16 , 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 | 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 |
4 | 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 |
5 | 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 |
6 | nsv1049434 | chr9:136529766-136618314 | Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
7 | nsv1049281 | chr9:136535471-136617805 | Flanking Active TSS Enhancers Active TSS Weak transcription Genic enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
8 | nsv894114 | chr9:136538798-136779153 | Flanking Active TSS Enhancers Genic enhancers Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 16 gene(s) | inside rSNPs | diseases |
9 | nsv428546 | chr9:136541745-136720872 | Enhancers Strong transcription Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 10 gene(s) | inside rSNPs | diseases |
10 | nsv894115 | chr9:136571089-136617292 | Weak transcription Enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
11 | nsv894116 | chr9:136572021-136608669 | Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
12 | nsv831745 | chr9:136593702-136780273 | Bivalent Enhancer Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 14 gene(s) | inside rSNPs | diseases |
13 | nsv894117 | chr9:136600201-136716399 | Strong transcription Weak transcription Genic enhancers Enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
14 | esv3429780 | chr9:136607447-136628052 | Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh | TF binding regionChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
15 | nsv8577 | chr9:136607798-136621845 | Weak transcription Bivalent Enhancer Enhancers ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription | TF binding regionChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
16 | nsv831746 | chr9:136607829-136750740 | Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 13 gene(s) | inside rSNPs | diseases |
No data |
No. | Chromosome Location | Chromatin state | Cell line | Tissue |
---|---|---|---|---|
1 | chr9:136605400-136610000 | Enhancers | Liver | Liver |
2 | chr9:136606600-136610600 | Weak transcription | Fetal Intestine Small | intestine |
3 | chr9:136608200-136610000 | Enhancers | HepG2 | liver |
4 | chr9:136608200-136616400 | Weak transcription | iPS DF 19.11 Cell Line | embryonic stem cell |
5 | chr9:136608400-136608600 | Bivalent Enhancer | Fetal Lung | lung |