Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1357620 | XP_003601902.1 | 98.000 | 50 | 1 | 0 | 1 | 50 | 350 | 399 | 1.06e-25 | 106 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1357620 | G7J360 | 98.000 | 50 | 1 | 0 | 1 | 50 | 350 | 399 | 5.06e-26 | 106 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0072420 | Msa1357620 | 0.834255 | 3.330604e-56 | -8.615850e-47 |
| Msa1357620 | Msa1432420 | 0.816786 | 4.621575e-52 | -8.615850e-47 |
| Msa1357620 | Msa1434420 | -0.816379 | 5.701486e-52 | -8.615850e-47 |
| Msa1357620 | Msa1453610 | 0.802156 | 6.411889e-49 | -8.615850e-47 |
| Msa1357620 | Msa1457620 | 0.824859 | 6.424761e-54 | -8.615850e-47 |
| Msa0606720 | Msa1357620 | 0.820153 | 7.971082e-53 | -8.615850e-47 |
| Msa0607050 | Msa1357620 | 0.823469 | 1.362108e-53 | -8.615850e-47 |
| Msa0647500 | Msa1357620 | 0.814427 | 1.549008e-51 | -8.615850e-47 |
| Msa0649490 | Msa1357620 | 0.810900 | 9.157716e-51 | -8.615850e-47 |
| Msa0651050 | Msa1357620 | 0.805486 | 1.304495e-49 | -8.615850e-47 |
| Msa0666270 | Msa1357620 | 0.825805 | 3.837604e-54 | -8.615850e-47 |
| Msa0690150 | Msa1357620 | 0.813156 | 2.952183e-51 | -8.615850e-47 |
| Msa0709400 | Msa1357620 | 0.862089 | 6.484027e-64 | -8.615850e-47 |
| Msa0802980 | Msa1357620 | 0.843408 | 1.427327e-58 | -8.615850e-47 |
| Msa0820650 | Msa1357620 | 0.820150 | 7.986980e-53 | -8.615850e-47 |
| Msa0123560 | Msa1357620 | 0.830752 | 2.460837e-55 | -8.615850e-47 |
| Msa0149200 | Msa1357620 | 0.800906 | 1.156644e-48 | -8.615850e-47 |
| Msa0189320 | Msa1357620 | 0.828752 | 7.550589e-55 | -8.615850e-47 |
| Msa0191940 | Msa1357620 | 0.801418 | 9.090821e-49 | -8.615850e-47 |
| Msa0194950 | Msa1357620 | -0.850497 | 1.634040e-60 | -8.615850e-47 |
| Msa0233630 | Msa1357620 | -0.820304 | 7.360166e-53 | -8.615850e-47 |
| Msa0236960 | Msa1357620 | -0.834524 | 2.852247e-56 | -8.615850e-47 |
| Msa1239910 | Msa1357620 | 0.835261 | 1.860495e-56 | -8.615850e-47 |
| Msa1244600 | Msa1357620 | 0.805028 | 1.626982e-49 | -8.615850e-47 |
| Msa1267430 | Msa1357620 | 0.808759 | 2.644801e-50 | -8.615850e-47 |
| Msa1305660 | Msa1357620 | 0.815966 | 7.051929e-52 | -8.615850e-47 |
| Msa0398670 | Msa1357620 | 0.846970 | 1.554364e-59 | -8.615850e-47 |
| Msa0422470 | Msa1357620 | -0.805039 | 1.618390e-49 | -8.615850e-47 |
| Msa1048280 | Msa1357620 | -0.800471 | 1.419379e-48 | -8.615850e-47 |
| Msa0240920 | Msa1357620 | 0.817642 | 2.966757e-52 | -8.615850e-47 |
| Msa0271510 | Msa1357620 | 0.849413 | 3.285826e-60 | -8.615850e-47 |
| Msa0272300 | Msa1357620 | 0.840866 | 6.715682e-58 | -8.615850e-47 |
| Msa0308270 | Msa1357620 | 0.803045 | 4.204423e-49 | -8.615850e-47 |
| Msa0312650 | Msa1357620 | 0.801611 | 8.298340e-49 | -8.615850e-47 |
| Msa0315440 | Msa1357620 | -0.847016 | 1.509355e-59 | -8.615850e-47 |
| Msa0334550 | Msa1357620 | 0.820694 | 5.991924e-53 | -8.615850e-47 |
| Msa1117240 | Msa1357620 | 0.810731 | 9.961238e-51 | -8.615850e-47 |
| Msa1124960 | Msa1357620 | 0.846431 | 2.182032e-59 | -8.615850e-47 |
| Msa1165940 | Msa1357620 | 0.804817 | 1.800603e-49 | -8.615850e-47 |
| Msa0484720 | Msa1357620 | 0.805977 | 1.028699e-49 | -8.615850e-47 |
| Msa0521050 | Msa1357620 | 0.814268 | 1.679726e-51 | -8.615850e-47 |
| Msa0530560 | Msa1357620 | 0.803226 | 3.856438e-49 | -8.615850e-47 |
| Msa0531530 | Msa1357620 | 0.807330 | 5.329498e-50 | -8.615850e-47 |
| Msa0548240 | Msa1357620 | 0.855465 | 6.196598e-62 | -8.615850e-47 |
| Msa0880020 | Msa1357620 | 0.809303 | 2.022551e-50 | -8.615850e-47 |
| Msa0963270 | Msa1357620 | 0.811719 | 6.082939e-51 | -8.615850e-47 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1357620 | MtrunA17_Chr3g0123571 | 98.000 | 50 | 1 | 0 | 1 | 50 | 350 | 399 | 9.74e-30 | 106 |
| Msa1357620 | MtrunA17_Chr8g0381601 | 68.750 | 48 | 14 | 1 | 1 | 48 | 349 | 395 | 1.89e-17 | 73.2 |
| Msa1357620 | MtrunA17_Chr7g0227041 | 72.973 | 37 | 10 | 0 | 1 | 37 | 357 | 393 | 9.36e-15 | 65.9 |
| Msa1357620 | MtrunA17_Chr8g0381611 | 52.000 | 50 | 23 | 1 | 1 | 50 | 341 | 389 | 1.54e-11 | 56.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1357620 | AT1G67850.4 | 67.347 | 49 | 16 | 0 | 1 | 49 | 337 | 385 | 2.95e-16 | 70.1 |
| Msa1357620 | AT1G67850.6 | 67.347 | 49 | 16 | 0 | 1 | 49 | 353 | 401 | 3.25e-16 | 70.1 |
| Msa1357620 | AT1G67850.7 | 67.347 | 49 | 16 | 0 | 1 | 49 | 353 | 401 | 3.25e-16 | 70.1 |
| Msa1357620 | AT1G67850.1 | 67.347 | 49 | 16 | 0 | 1 | 49 | 353 | 401 | 3.25e-16 | 70.1 |
| Msa1357620 | AT1G67850.3 | 67.347 | 49 | 16 | 0 | 1 | 49 | 353 | 401 | 3.25e-16 | 70.1 |
| Msa1357620 | AT1G67850.2 | 67.347 | 49 | 16 | 0 | 1 | 49 | 353 | 401 | 3.25e-16 | 70.1 |
| Msa1357620 | AT1G67850.5 | 67.347 | 49 | 16 | 0 | 1 | 49 | 353 | 401 | 3.25e-16 | 70.1 |
| Msa1357620 | AT3G27470.5 | 60.870 | 46 | 18 | 0 | 1 | 46 | 349 | 394 | 6.26e-15 | 66.6 |
| Msa1357620 | AT3G27470.2 | 60.870 | 46 | 18 | 0 | 1 | 46 | 349 | 394 | 6.85e-15 | 66.6 |
| Msa1357620 | AT3G27470.1 | 60.870 | 46 | 18 | 0 | 1 | 46 | 349 | 394 | 6.85e-15 | 66.6 |
| Msa1357620 | AT3G27470.4 | 60.870 | 46 | 18 | 0 | 1 | 46 | 349 | 394 | 6.85e-15 | 66.6 |
| Msa1357620 | AT3G27470.3 | 60.870 | 46 | 18 | 0 | 1 | 46 | 349 | 394 | 6.85e-15 | 66.6 |
| Msa1357620 | AT2G28310.2 | 69.444 | 36 | 11 | 0 | 1 | 36 | 333 | 368 | 1.56e-13 | 62.8 |
| Msa1357620 | AT2G28310.1 | 69.444 | 36 | 11 | 0 | 1 | 36 | 333 | 368 | 1.56e-13 | 62.8 |
| Msa1357620 | AT2G28310.3 | 69.444 | 36 | 11 | 0 | 1 | 36 | 333 | 368 | 1.56e-13 | 62.8 |
| Msa1357620 | AT1G08040.2 | 67.568 | 37 | 12 | 0 | 1 | 37 | 340 | 376 | 4.32e-13 | 61.2 |
| Msa1357620 | AT1G08040.4 | 67.568 | 37 | 12 | 0 | 1 | 37 | 340 | 376 | 4.32e-13 | 61.2 |
| Msa1357620 | AT1G08040.1 | 67.568 | 37 | 12 | 0 | 1 | 37 | 340 | 376 | 4.32e-13 | 61.2 |
| Msa1357620 | AT1G08040.3 | 67.568 | 37 | 12 | 0 | 1 | 37 | 336 | 372 | 4.48e-13 | 61.2 |
| Msa1357620 | AT1G24570.1 | 56.250 | 48 | 21 | 0 | 1 | 48 | 331 | 378 | 6.72e-13 | 60.8 |
| Msa1357620 | AT1G13000.2 | 54.000 | 50 | 18 | 1 | 1 | 50 | 357 | 401 | 8.02e-13 | 60.5 |
| Msa1357620 | AT1G13000.5 | 54.000 | 50 | 18 | 1 | 1 | 50 | 357 | 401 | 8.02e-13 | 60.5 |
| Msa1357620 | AT1G13000.4 | 54.000 | 50 | 18 | 1 | 1 | 50 | 357 | 401 | 8.02e-13 | 60.5 |
| Msa1357620 | AT1G13000.1 | 54.000 | 50 | 18 | 1 | 1 | 50 | 357 | 401 | 8.02e-13 | 60.5 |
| Msa1357620 | AT1G24570.2 | 56.250 | 48 | 21 | 0 | 1 | 48 | 338 | 385 | 8.88e-13 | 60.5 |
Find 28 sgRNAs with CRISPR-Local
Find 43 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCCCTGCCATGGTGCTTTCC+CGG | 0.260665 | tig0016100:+23878 | None:intergenic |
| TTACAGTAGAGGTTGCTTAT+TGG | 0.317301 | tig0016100:-23370 | Msa1357620:three_prime_UTR |
| TTCTACATTGGATTTAAGTT+TGG | 0.340726 | tig0016100:+23455 | None:intergenic |
| GGCAGGTGAGGGAGAGATGT+AGG | 0.349851 | tig0016100:-23703 | Msa1357620:intron |
| TTGCAGGGTAAAACTGAAAC+CGG | 0.384720 | tig0016100:-23897 | None:intergenic |
| AACCGGGAAAGCACCATGGC+AGG | 0.417235 | tig0016100:-23880 | Msa1357620:CDS |
| GGAGGTGAGTCTACGCATAA+TGG | 0.439183 | tig0016100:+23541 | None:intergenic |
| TTTAAGTTTGGTCCCTAGCT+AGG | 0.457624 | tig0016100:+23467 | None:intergenic |
| GCTTGACTTGTACACAGTTA+TGG | 0.462096 | tig0016100:-23567 | Msa1357620:three_prime_UTR |
| ACCGGGAAAGCACCATGGCA+GGG | 0.486609 | tig0016100:-23879 | Msa1357620:CDS |
| CCGGGAAAGCACCATGGCAG+GGG | 0.491082 | tig0016100:-23878 | Msa1357620:CDS |
| GGTGAGGGAGAGATGTAGGA+AGG | 0.509559 | tig0016100:-23699 | Msa1357620:CDS |
| ATTAATATGTCTAATTCCAC+TGG | 0.509862 | tig0016100:-23611 | Msa1357620:CDS |
| GAACATGCATATTTCAAGTC+CGG | 0.512196 | tig0016100:-23641 | Msa1357620:CDS |
| AAGAACAAGTGACACATCTC+AGG | 0.513368 | tig0016100:+23339 | None:intergenic |
| CATGAAATAGAGTCCTAGCT+AGG | 0.518879 | tig0016100:-23480 | Msa1357620:three_prime_UTR |
| TCAGCTCTCAAGTTCTACAT+TGG | 0.542981 | tig0016100:+23443 | None:intergenic |
| GCATATTTCAAGTCCGGCGG+TGG | 0.544222 | tig0016100:-23635 | Msa1357620:CDS |
| GGGAGAGATGTAGGAAGGAG+TGG | 0.553738 | tig0016100:-23694 | Msa1357620:CDS |
| TGTCTCATAAATTACAGTAG+AGG | 0.570186 | tig0016100:-23381 | Msa1357620:three_prime_UTR |
| CGCTAACCGACTCTGAAACA+TGG | 0.596779 | tig0016100:+23670 | None:intergenic |
| ATGAAATAGAGTCCTAGCTA+GGG | 0.599839 | tig0016100:-23479 | Msa1357620:three_prime_UTR |
| CGGGAAAGCACCATGGCAGG+GGG | 0.604779 | tig0016100:-23877 | Msa1357620:intron |
| AGTGGACCATGTTTCAGAGT+CGG | 0.607117 | tig0016100:-23676 | Msa1357620:CDS |
| AGACATATTAATACCACCGC+CGG | 0.622372 | tig0016100:+23622 | None:intergenic |
| CTGAAACCGGGAAAGCACCA+TGG | 0.651275 | tig0016100:-23884 | Msa1357620:CDS |
| TGCAGGGTAAAACTGAAACC+GGG | 0.654503 | tig0016100:-23896 | None:intergenic |
| CATGCATATTTCAAGTCCGG+CGG | 0.674373 | tig0016100:-23638 | Msa1357620:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TAAGAATATATTTCAAAAAA+GGG | + | tig0016100:23647-23666 | None:intergenic | 10.0% |
| !! | ATAAGAATATATTTCAAAAA+AGG | + | tig0016100:23648-23667 | None:intergenic | 10.0% |
| !! | AAGAATATATTTCAAAAAAG+GGG | + | tig0016100:23646-23665 | None:intergenic | 15.0% |
| !! | AGAATATATTTCAAAAAAGG+GGG | + | tig0016100:23645-23664 | None:intergenic | 20.0% |
| !! | TTTTTACTTGATATGTGACT+TGG | - | tig0016100:23320-23339 | Msa1357620:three_prime_UTR | 25.0% |
| ! | GTTTAATATACTTCGAATGT+TGG | + | tig0016100:23360-23379 | None:intergenic | 25.0% |
| ! | ATTAATATGTCTAATTCCAC+TGG | - | tig0016100:23550-23569 | Msa1357620:three_prime_UTR | 25.0% |
| ! | GAATATATTTCAAAAAAGGG+GGG | + | tig0016100:23644-23663 | None:intergenic | 25.0% |
| !! | TTCTACATTGGATTTAAGTT+TGG | + | tig0016100:23709-23728 | None:intergenic | 25.0% |
| TAATATACTTCGAATGTTGG+AGG | + | tig0016100:23357-23376 | None:intergenic | 30.0% | |
| TGATGTTTCAATGTTGTTGA+TGG | - | tig0016100:23437-23456 | Msa1357620:three_prime_UTR | 30.0% | |
| TGTCTCATAAATTACAGTAG+AGG | - | tig0016100:23780-23799 | Msa1357620:intron | 30.0% | |
| AACTAATCAACAACCTGTGA+AGG | - | tig0016100:23377-23396 | Msa1357620:three_prime_UTR | 35.0% | |
| TAAGATAAAGACTCCTTCAC+AGG | + | tig0016100:23393-23412 | None:intergenic | 35.0% | |
| ! | GAACATGCATATTTCAAGTC+CGG | - | tig0016100:23520-23539 | Msa1357620:three_prime_UTR | 35.0% |
| TATATTTCAAAAAAGGGGGG+AGG | + | tig0016100:23641-23660 | None:intergenic | 35.0% | |
| ATGAAATAGAGTCCTAGCTA+GGG | - | tig0016100:23682-23701 | Msa1357620:CDS | 35.0% | |
| TTACAGTAGAGGTTGCTTAT+TGG | - | tig0016100:23791-23810 | Msa1357620:intron | 35.0% | |
| !! | GTTTCAATGTTGTTGATGGC+AGG | - | tig0016100:23441-23460 | Msa1357620:three_prime_UTR | 40.0% |
| AGACATATTAATACCACCGC+CGG | + | tig0016100:23542-23561 | None:intergenic | 40.0% | |
| ! | GTTTTGTCTCTAATGACCAG+TGG | + | tig0016100:23569-23588 | None:intergenic | 40.0% |
| !! | GCTTGACTTGTACACAGTTA+TGG | - | tig0016100:23594-23613 | Msa1357620:exon | 40.0% |
| CATGAAATAGAGTCCTAGCT+AGG | - | tig0016100:23681-23700 | Msa1357620:CDS | 40.0% | |
| ! | TTTAAGTTTGGTCCCTAGCT+AGG | + | tig0016100:23697-23716 | None:intergenic | 40.0% |
| TCAGCTCTCAAGTTCTACAT+TGG | + | tig0016100:23721-23740 | None:intergenic | 40.0% | |
| AAGAACAAGTGACACATCTC+AGG | + | tig0016100:23825-23844 | None:intergenic | 40.0% | |
| !! | AATGTTGTTGATGGCAGGTG+AGG | - | tig0016100:23446-23465 | Msa1357620:three_prime_UTR | 45.0% |
| !! | ATGTTGTTGATGGCAGGTGA+GGG | - | tig0016100:23447-23466 | Msa1357620:three_prime_UTR | 45.0% |
| AGTGGACCATGTTTCAGAGT+CGG | - | tig0016100:23485-23504 | Msa1357620:three_prime_UTR | 45.0% | |
| ! | CATGCATATTTCAAGTCCGG+CGG | - | tig0016100:23523-23542 | Msa1357620:three_prime_UTR | 45.0% |
| !! | CGCTAACCGACTCTGAAACA+TGG | + | tig0016100:23494-23513 | None:intergenic | 50.0% |
| GGAGGTGAGTCTACGCATAA+TGG | + | tig0016100:23623-23642 | None:intergenic | 50.0% | |
| !! | CTGAAACCGGGAAAGCACCA+TGG | - | tig0016100:23277-23296 | Msa1357620:three_prime_UTR | 55.0% |
| GCAAAACATACCCCCTGCCA+TGG | + | tig0016100:23297-23316 | None:intergenic | 55.0% | |
| GGTGAGGGAGAGATGTAGGA+AGG | - | tig0016100:23462-23481 | Msa1357620:three_prime_UTR | 55.0% | |
| GGGAGAGATGTAGGAAGGAG+TGG | - | tig0016100:23467-23486 | Msa1357620:three_prime_UTR | 55.0% | |
| ! | GCATATTTCAAGTCCGGCGG+TGG | - | tig0016100:23526-23545 | Msa1357620:three_prime_UTR | 55.0% |
| !! | AACCGGGAAAGCACCATGGC+AGG | - | tig0016100:23281-23300 | Msa1357620:three_prime_UTR | 60.0% |
| !! | ACCGGGAAAGCACCATGGCA+GGG | - | tig0016100:23282-23301 | Msa1357620:three_prime_UTR | 60.0% |
| GGCAGGTGAGGGAGAGATGT+AGG | - | tig0016100:23458-23477 | Msa1357620:three_prime_UTR | 60.0% | |
| CCCCTGCCATGGTGCTTTCC+CGG | + | tig0016100:23286-23305 | None:intergenic | 65.0% | |
| !! | CCGGGAAAGCACCATGGCAG+GGG | - | tig0016100:23283-23302 | Msa1357620:three_prime_UTR | 65.0% |
| !! | CGGGAAAGCACCATGGCAGG+GGG | - | tig0016100:23284-23303 | Msa1357620:three_prime_UTR | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0016100 | gene | 23270 | 23913 | 23270 | ID=Msa1357620;Name=Msa1357620 |
| tig0016100 | mRNA | 23270 | 23913 | 23270 | ID=Msa1357620-mRNA-1;Parent=Msa1357620;Name=Msa1357620-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|1|0.5|1|1|1|2|334|50 |
| tig0016100 | exon | 23270 | 23720 | 23270 | ID=Msa1357620-mRNA-1:exon:10452;Parent=Msa1357620-mRNA-1 |
| tig0016100 | exon | 23878 | 23913 | 23878 | ID=Msa1357620-mRNA-1:exon:10451;Parent=Msa1357620-mRNA-1 |
| tig0016100 | CDS | 23878 | 23913 | 23878 | ID=Msa1357620-mRNA-1:cds;Parent=Msa1357620-mRNA-1 |
| tig0016100 | CDS | 23604 | 23720 | 23604 | ID=Msa1357620-mRNA-1:cds;Parent=Msa1357620-mRNA-1 |
| tig0016100 | three_prime_UTR | 23270 | 23603 | 23270 | ID=Msa1357620-mRNA-1:three_prime_utr;Parent=Msa1357620-mRNA-1 |
| Gene Sequence |
| Protein sequence |
