Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene42645.t1 | XP_003603233.2 | 95.7 | 117 | 5 | 0 | 1 | 117 | 1 | 117 | 9.20E-58 | 232.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene42645.t1 | G7J943 | 95.7 | 117 | 5 | 0 | 1 | 117 | 1 | 117 | 6.6e-58 | 232.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049159 | MS.gene42645 | 0.807428 | 5.08E-50 | -1.69E-46 |
| MS.gene049254 | MS.gene42645 | 0.821266 | 4.42E-53 | -1.69E-46 |
| MS.gene049404 | MS.gene42645 | 0.809382 | 1.95E-50 | -1.69E-46 |
| MS.gene049435 | MS.gene42645 | 0.806428 | 8.26E-50 | -1.69E-46 |
| MS.gene049452 | MS.gene42645 | 0.810856 | 9.36E-51 | -1.69E-46 |
| MS.gene050026 | MS.gene42645 | 0.803645 | 3.16E-49 | -1.69E-46 |
| MS.gene050073 | MS.gene42645 | 0.81828 | 2.13E-52 | -1.69E-46 |
| MS.gene050119 | MS.gene42645 | 0.817209 | 3.71E-52 | -1.69E-46 |
| MS.gene050559 | MS.gene42645 | 0.812202 | 4.77E-51 | -1.69E-46 |
| MS.gene050561 | MS.gene42645 | 0.812264 | 4.63E-51 | -1.69E-46 |
| MS.gene050605 | MS.gene42645 | 0.80645 | 8.18E-50 | -1.69E-46 |
| MS.gene050611 | MS.gene42645 | 0.814157 | 1.78E-51 | -1.69E-46 |
| MS.gene050680 | MS.gene42645 | 0.828081 | 1.10E-54 | -1.69E-46 |
| MS.gene050750 | MS.gene42645 | 0.801973 | 6.99E-49 | -1.69E-46 |
| MS.gene050905 | MS.gene42645 | -0.807096 | 5.97E-50 | -1.69E-46 |
| MS.gene050953 | MS.gene42645 | 0.804985 | 1.66E-49 | -1.69E-46 |
| MS.gene051181 | MS.gene42645 | 0.813706 | 2.23E-51 | -1.69E-46 |
| MS.gene051279 | MS.gene42645 | 0.804828 | 1.79E-49 | -1.69E-46 |
| MS.gene051368 | MS.gene42645 | 0.815931 | 7.18E-52 | -1.69E-46 |
| MS.gene051594 | MS.gene42645 | 0.806368 | 8.51E-50 | -1.69E-46 |
| MS.gene051744 | MS.gene42645 | 0.810366 | 1.19E-50 | -1.69E-46 |
| MS.gene052190 | MS.gene42645 | 0.801442 | 8.99E-49 | -1.69E-46 |
| MS.gene052208 | MS.gene42645 | 0.812388 | 4.35E-51 | -1.69E-46 |
| MS.gene052519 | MS.gene42645 | 0.82796 | 1.17E-54 | -1.69E-46 |
| MS.gene052582 | MS.gene42645 | 0.816485 | 5.40E-52 | -1.69E-46 |
| MS.gene052584 | MS.gene42645 | 0.818229 | 2.19E-52 | -1.69E-46 |
| MS.gene052867 | MS.gene42645 | 0.832666 | 8.30E-56 | -1.69E-46 |
| MS.gene053006 | MS.gene42645 | 0.801719 | 7.88E-49 | -1.69E-46 |
| MS.gene05308 | MS.gene42645 | 0.801786 | 7.64E-49 | -1.69E-46 |
| MS.gene053166 | MS.gene42645 | 0.851913 | 6.51E-61 | -1.69E-46 |
| MS.gene053202 | MS.gene42645 | 0.802115 | 6.54E-49 | -1.69E-46 |
| MS.gene053226 | MS.gene42645 | 0.812347 | 4.44E-51 | -1.69E-46 |
| MS.gene053931 | MS.gene42645 | 0.818397 | 2.00E-52 | -1.69E-46 |
| MS.gene053953 | MS.gene42645 | 0.816308 | 5.91E-52 | -1.69E-46 |
| MS.gene05414 | MS.gene42645 | 0.810973 | 8.83E-51 | -1.69E-46 |
| MS.gene05415 | MS.gene42645 | 0.843474 | 1.37E-58 | -1.69E-46 |
| MS.gene054236 | MS.gene42645 | 0.813682 | 2.26E-51 | -1.69E-46 |
| MS.gene054405 | MS.gene42645 | 0.806954 | 6.40E-50 | -1.69E-46 |
| MS.gene054559 | MS.gene42645 | 0.844832 | 5.92E-59 | -1.69E-46 |
| MS.gene054651 | MS.gene42645 | 0.831313 | 1.79E-55 | -1.69E-46 |
| MS.gene054657 | MS.gene42645 | 0.824342 | 8.50E-54 | -1.69E-46 |
| MS.gene054994 | MS.gene42645 | 0.811675 | 6.22E-51 | -1.69E-46 |
| MS.gene05510 | MS.gene42645 | 0.802349 | 5.85E-49 | -1.69E-46 |
| MS.gene055227 | MS.gene42645 | 0.803066 | 4.16E-49 | -1.69E-46 |
| MS.gene055228 | MS.gene42645 | 0.808409 | 3.14E-50 | -1.69E-46 |
| MS.gene05531 | MS.gene42645 | 0.800994 | 1.11E-48 | -1.69E-46 |
| MS.gene055701 | MS.gene42645 | 0.815455 | 9.16E-52 | -1.69E-46 |
| MS.gene055818 | MS.gene42645 | 0.842667 | 2.25E-58 | -1.69E-46 |
| MS.gene055841 | MS.gene42645 | 0.812635 | 3.84E-51 | -1.69E-46 |
| MS.gene056162 | MS.gene42645 | 0.81241 | 4.30E-51 | -1.69E-46 |
| MS.gene056173 | MS.gene42645 | 0.802477 | 5.51E-49 | -1.69E-46 |
| MS.gene056174 | MS.gene42645 | 0.801626 | 8.24E-49 | -1.69E-46 |
| MS.gene056252 | MS.gene42645 | 0.809034 | 2.31E-50 | -1.69E-46 |
| MS.gene056366 | MS.gene42645 | 0.824058 | 9.91E-54 | -1.69E-46 |
| MS.gene056498 | MS.gene42645 | 0.817715 | 2.86E-52 | -1.69E-46 |
| MS.gene056506 | MS.gene42645 | 0.816813 | 4.56E-52 | -1.69E-46 |
| MS.gene05686 | MS.gene42645 | 0.801273 | 9.73E-49 | -1.69E-46 |
| MS.gene057021 | MS.gene42645 | 0.807352 | 5.27E-50 | -1.69E-46 |
| MS.gene057060 | MS.gene42645 | 0.847001 | 1.52E-59 | -1.69E-46 |
| MS.gene057208 | MS.gene42645 | 0.842828 | 2.04E-58 | -1.69E-46 |
| MS.gene057444 | MS.gene42645 | 0.83105 | 2.08E-55 | -1.69E-46 |
| MS.gene057598 | MS.gene42645 | 0.834031 | 3.79E-56 | -1.69E-46 |
| MS.gene057693 | MS.gene42645 | 0.814459 | 1.52E-51 | -1.69E-46 |
| MS.gene057869 | MS.gene42645 | 0.805385 | 1.37E-49 | -1.69E-46 |
| MS.gene058009 | MS.gene42645 | 0.823592 | 1.27E-53 | -1.69E-46 |
| MS.gene058010 | MS.gene42645 | 0.817018 | 4.10E-52 | -1.69E-46 |
| MS.gene058037 | MS.gene42645 | 0.807221 | 5.62E-50 | -1.69E-46 |
| MS.gene058294 | MS.gene42645 | 0.801706 | 7.93E-49 | -1.69E-46 |
| MS.gene058548 | MS.gene42645 | 0.806671 | 7.35E-50 | -1.69E-46 |
| MS.gene058625 | MS.gene42645 | 0.813084 | 3.06E-51 | -1.69E-46 |
| MS.gene058783 | MS.gene42645 | 0.812122 | 4.97E-51 | -1.69E-46 |
| MS.gene058979 | MS.gene42645 | 0.849057 | 4.13E-60 | -1.69E-46 |
| MS.gene059161 | MS.gene42645 | 0.815488 | 9.01E-52 | -1.69E-46 |
| MS.gene059584 | MS.gene42645 | 0.811316 | 7.44E-51 | -1.69E-46 |
| MS.gene059607 | MS.gene42645 | 0.803109 | 4.08E-49 | -1.69E-46 |
| MS.gene060011 | MS.gene42645 | 0.818425 | 1.97E-52 | -1.69E-46 |
| MS.gene060246 | MS.gene42645 | 0.801371 | 9.29E-49 | -1.69E-46 |
| MS.gene060310 | MS.gene42645 | 0.822352 | 2.48E-53 | -1.69E-46 |
| MS.gene060322 | MS.gene42645 | 0.806761 | 7.03E-50 | -1.69E-46 |
| MS.gene060918 | MS.gene42645 | 0.808147 | 3.57E-50 | -1.69E-46 |
PPI:
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene42645.t1 | MTR_3g105340 | 94.915 | 118 | 6 | 0 | 1 | 118 | 1 | 118 | 4.05e-82 | 236 |
| MS.gene42645.t1 | MTR_1g014930 | 53.509 | 114 | 46 | 2 | 12 | 118 | 17 | 130 | 3.89e-36 | 120 |
| MS.gene42645.t1 | MTR_8g021190 | 55.208 | 96 | 41 | 1 | 8 | 101 | 27 | 122 | 3.16e-34 | 116 |
| MS.gene42645.t1 | MTR_4g125030 | 55.102 | 98 | 42 | 1 | 10 | 105 | 21 | 118 | 5.95e-32 | 109 |
| MS.gene42645.t1 | MTR_4g125010 | 46.957 | 115 | 55 | 3 | 5 | 115 | 18 | 130 | 5.59e-28 | 100 |
| MS.gene42645.t1 | MTR_5g006430 | 47.297 | 74 | 38 | 1 | 10 | 82 | 1 | 74 | 1.49e-22 | 85.1 |
| MS.gene42645.t1 | MTR_2g101140 | 52.778 | 72 | 33 | 1 | 1 | 72 | 52 | 122 | 7.92e-21 | 83.2 |
| MS.gene42645.t1 | MTR_8g013990 | 57.143 | 63 | 26 | 1 | 11 | 73 | 62 | 123 | 1.15e-20 | 82.8 |
| MS.gene42645.t1 | MTR_3g109860 | 36.111 | 108 | 68 | 1 | 11 | 117 | 36 | 143 | 6.27e-20 | 79.7 |
| MS.gene42645.t1 | MTR_1g103550 | 45.946 | 74 | 38 | 2 | 10 | 81 | 1 | 74 | 1.31e-19 | 78.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene42645.t1 | AT1G72510 | 57.447 | 94 | 38 | 1 | 14 | 105 | 36 | 129 | 1.65e-34 | 117 |
| MS.gene42645.t1 | AT1G72510 | 57.447 | 94 | 38 | 1 | 14 | 105 | 36 | 129 | 1.65e-34 | 117 |
| MS.gene42645.t1 | AT2G09970 | 48.980 | 98 | 47 | 2 | 11 | 105 | 33 | 130 | 1.50e-27 | 99.8 |
| MS.gene42645.t1 | AT5G20670 | 47.959 | 98 | 46 | 3 | 12 | 106 | 23 | 118 | 3.04e-23 | 88.2 |
| MS.gene42645.t1 | AT1G54095 | 45.192 | 104 | 52 | 3 | 1 | 101 | 6 | 107 | 1.81e-21 | 83.6 |
| MS.gene42645.t1 | AT4G14819 | 36.697 | 109 | 62 | 3 | 10 | 118 | 1 | 102 | 2.62e-19 | 77.0 |
| MS.gene42645.t1 | AT3G22540 | 38.462 | 91 | 51 | 3 | 10 | 99 | 1 | 87 | 5.37e-18 | 73.6 |
| MS.gene42645.t1 | AT1G79770 | 43.878 | 98 | 47 | 3 | 7 | 100 | 47 | 140 | 8.17e-16 | 69.7 |
| MS.gene42645.t1 | AT5G25840 | 42.391 | 92 | 38 | 3 | 3 | 82 | 34 | 122 | 1.04e-13 | 64.3 |
| MS.gene42645.t1 | AT2G25780 | 38.202 | 89 | 51 | 3 | 15 | 100 | 39 | 126 | 1.44e-12 | 60.8 |
Find 28 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAATCAACCGTAGGTTTATT+AGG | 0.246906 | 3.4:+92129412 | None:intergenic |
| CTCCATCGTCGCCGCGGTTT+CGG | 0.297193 | 3.4:+92129645 | None:intergenic |
| TTTCAAAGCTTCTTCTTTCA+CGG | 0.372656 | 3.4:+92129507 | None:intergenic |
| TACCTGGGTCGTTGGATTTG+TGG | 0.383506 | 3.4:-92129544 | MS.gene42645:CDS |
| ACCTGGGTCGTTGGATTTGT+GGG | 0.391134 | 3.4:-92129543 | MS.gene42645:CDS |
| GTGCTACTGTTGCGGCTTAA+CGG | 0.404880 | 3.4:-92129608 | MS.gene42645:CDS |
| AAACTCAAAGGTTGTTTCCT+CGG | 0.484002 | 3.4:+92129346 | None:intergenic |
| CCATGTTCGTGAGAAATACC+TGG | 0.494919 | 3.4:-92129560 | MS.gene42645:CDS |
| GCCGCAACAGTAGCACTTCA+CGG | 0.509628 | 3.4:+92129615 | None:intergenic |
| GTGAGAAATACCTGGGTCGT+TGG | 0.543743 | 3.4:-92129552 | MS.gene42645:CDS |
| GTGTTGATTAAGAGCTTCAT+CGG | 0.550067 | 3.4:+92129465 | None:intergenic |
| AACCGCGGCGACGATGGAGG+TGG | 0.571492 | 3.4:-92129641 | MS.gene42645:CDS |
| AACCGAAACCGCGGCGACGA+TGG | 0.582114 | 3.4:-92129647 | MS.gene42645:CDS |
| AAGTCCTCCTAATAAACCTA+CGG | 0.601557 | 3.4:-92129419 | MS.gene42645:CDS |
| TCAACCGTAGGTTTATTAGG+AGG | 0.609122 | 3.4:+92129415 | None:intergenic |
| CCAGGTATTTCTCACGAACA+TGG | 0.611108 | 3.4:+92129560 | None:intergenic |
| TTCGGTCTTTGGATTCTCCG+AGG | 0.613420 | 3.4:-92129363 | MS.gene42645:CDS |
| CGAAACCGCGGCGACGATGG+AGG | 0.615356 | 3.4:-92129644 | MS.gene42645:CDS |
| GCCCACAAATCCAACGACCC+AGG | 0.634250 | 3.4:+92129542 | None:intergenic |
| CCAACCGTTCGAAAACTCAA+AGG | 0.637318 | 3.4:+92129334 | None:intergenic |
| GCAAGAATCAAATCAACCGT+AGG | 0.641034 | 3.4:+92129403 | None:intergenic |
| CATGTTCGTGAGAAATACCT+GGG | 0.642264 | 3.4:-92129559 | MS.gene42645:CDS |
| GATTTGTGGGCTATGTGCAG+AGG | 0.661005 | 3.4:-92129530 | MS.gene42645:CDS |
| GCCGTGAAGTGCTACTGTTG+CGG | 0.673482 | 3.4:-92129616 | MS.gene42645:CDS |
| CTACTGTTGCGGCTTAACGG+AGG | 0.677501 | 3.4:-92129605 | MS.gene42645:CDS |
| TACCACCTCCATCGTCGCCG+CGG | 0.680469 | 3.4:+92129639 | None:intergenic |
| GATGGCTTTAACCGAAACCG+CGG | 0.711918 | 3.4:-92129656 | MS.gene42645:CDS |
| CGAACATGGTCAATATACGA+CGG | 0.745897 | 3.4:+92129574 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AAATCAACCGTAGGTTTATT+AGG | + | chr3.4:92129564-92129583 | None:intergenic | 30.0% | |
| TTTCAAAGCTTCTTCTTTCA+CGG | + | chr3.4:92129469-92129488 | None:intergenic | 30.0% | |
| ! | CTGTGAAACATCTTCTTTTT+CGG | - | chr3.4:92129592-92129611 | MS.gene42645:CDS | 30.0% |
| AAGTCCTCCTAATAAACCTA+CGG | - | chr3.4:92129554-92129573 | MS.gene42645:CDS | 35.0% | |
| ! | AAACTCAAAGGTTGTTTCCT+CGG | + | chr3.4:92129630-92129649 | None:intergenic | 35.0% |
| !! | ACAACCTTTGAGTTTTCGAA+CGG | - | chr3.4:92129635-92129654 | MS.gene42645:CDS | 35.0% |
| !! | GTGTTGATTAAGAGCTTCAT+CGG | + | chr3.4:92129511-92129530 | None:intergenic | 35.0% |
| !!! | ACATCTTCTTTTTCGGTCTT+TGG | - | chr3.4:92129599-92129618 | MS.gene42645:CDS | 35.0% |
| CATGTTCGTGAGAAATACCT+GGG | - | chr3.4:92129414-92129433 | MS.gene42645:CDS | 40.0% | |
| CGAACATGGTCAATATACGA+CGG | + | chr3.4:92129402-92129421 | None:intergenic | 40.0% | |
| GCAAGAATCAAATCAACCGT+AGG | + | chr3.4:92129573-92129592 | None:intergenic | 40.0% | |
| TCAACCGTAGGTTTATTAGG+AGG | + | chr3.4:92129561-92129580 | None:intergenic | 40.0% | |
| CCAACCGTTCGAAAACTCAA+AGG | + | chr3.4:92129642-92129661 | None:intergenic | 45.0% | |
| CCAGGTATTTCTCACGAACA+TGG | + | chr3.4:92129416-92129435 | None:intergenic | 45.0% | |
| CCATGTTCGTGAGAAATACC+TGG | - | chr3.4:92129413-92129432 | MS.gene42645:CDS | 45.0% | |
| !! | CCTTTGAGTTTTCGAACGGT+TGG | - | chr3.4:92129639-92129658 | MS.gene42645:CDS | 45.0% |
| ACCTGGGTCGTTGGATTTGT+GGG | - | chr3.4:92129430-92129449 | MS.gene42645:CDS | 50.0% | |
| GTGAGAAATACCTGGGTCGT+TGG | - | chr3.4:92129421-92129440 | MS.gene42645:CDS | 50.0% | |
| TACCTGGGTCGTTGGATTTG+TGG | - | chr3.4:92129429-92129448 | MS.gene42645:CDS | 50.0% | |
| TTCGGTCTTTGGATTCTCCG+AGG | - | chr3.4:92129610-92129629 | MS.gene42645:CDS | 50.0% | |
| ! | GATTTGTGGGCTATGTGCAG+AGG | - | chr3.4:92129443-92129462 | MS.gene42645:CDS | 50.0% |
| ! | GTGCTACTGTTGCGGCTTAA+CGG | - | chr3.4:92129365-92129384 | MS.gene42645:CDS | 50.0% |
| CTACTGTTGCGGCTTAACGG+AGG | - | chr3.4:92129368-92129387 | MS.gene42645:CDS | 55.0% | |
| GCCGCAACAGTAGCACTTCA+CGG | + | chr3.4:92129361-92129380 | None:intergenic | 55.0% | |
| ! | GCCGTGAAGTGCTACTGTTG+CGG | - | chr3.4:92129357-92129376 | MS.gene42645:CDS | 55.0% |
| GCCCACAAATCCAACGACCC+AGG | + | chr3.4:92129434-92129453 | None:intergenic | 60.0% | |
| AACCGAAACCGCGGCGACGA+TGG | - | chr3.4:92129326-92129345 | MS.gene42645:CDS | 65.0% | |
| CTCCATCGTCGCCGCGGTTT+CGG | + | chr3.4:92129331-92129350 | None:intergenic | 65.0% | |
| TACCACCTCCATCGTCGCCG+CGG | + | chr3.4:92129337-92129356 | None:intergenic | 65.0% | |
| AACCGCGGCGACGATGGAGG+TGG | - | chr3.4:92129332-92129351 | MS.gene42645:CDS | 70.0% | |
| CGAAACCGCGGCGACGATGG+AGG | - | chr3.4:92129329-92129348 | MS.gene42645:CDS | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 92129318 | 92129677 | 92129318 | ID=MS.gene42645 |
| chr3.4 | mRNA | 92129318 | 92129677 | 92129318 | ID=MS.gene42645.t1;Parent=MS.gene42645 |
| chr3.4 | exon | 92129318 | 92129677 | 92129318 | ID=MS.gene42645.t1.exon1;Parent=MS.gene42645.t1 |
| chr3.4 | CDS | 92129318 | 92129677 | 92129318 | ID=cds.MS.gene42645.t1;Parent=MS.gene42645.t1 |
| Gene Sequence |
| Protein sequence |
