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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0971880 | XP_003592855.1 | 95.753 | 518 | 19 | 1 | 8 | 522 | 5 | 522 | 0.0 | 1037 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0971880 | sp|W8JIS5|IO_CATRO | 44.444 | 495 | 264 | 6 | 19 | 507 | 20 | 509 | 2.28e-144 | 427 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0004340 | Msa0971880 | -0.804458 | 2.139970e-49 | -8.615850e-47 |
| Msa0010150 | Msa0971880 | 0.805254 | 1.458603e-49 | -8.615850e-47 |
| Msa0027860 | Msa0971880 | 0.803728 | 3.034575e-49 | -8.615850e-47 |
| Msa0036230 | Msa0971880 | 0.835209 | 1.917111e-56 | -8.615850e-47 |
| Msa0048950 | Msa0971880 | 0.824146 | 9.454482e-54 | -8.615850e-47 |
| Msa0059880 | Msa0971880 | 0.818778 | 1.641025e-52 | -8.615850e-47 |
| Msa0074620 | Msa0971880 | 0.815475 | 9.071449e-52 | -8.615850e-47 |
| Msa0075560 | Msa0971880 | 0.805931 | 1.051814e-49 | -8.615850e-47 |
| Msa0084150 | Msa0971880 | 0.828622 | 8.115930e-55 | -8.615850e-47 |
| Msa0084160 | Msa0971880 | 0.812136 | 4.933465e-51 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0971880 | MtrunA17_Chr1g0213671 | 95.753 | 518 | 19 | 1 | 8 | 522 | 5 | 522 | 0.0 | 1037 |
| Msa0971880 | MtrunA17_Chr7g0265611 | 44.628 | 484 | 259 | 7 | 29 | 507 | 35 | 514 | 1.13e-150 | 441 |
| Msa0971880 | MtrunA17_Chr1g0205361 | 42.355 | 484 | 263 | 9 | 29 | 509 | 26 | 496 | 8.26e-131 | 389 |
| Msa0971880 | MtrunA17_Chr8g0356001 | 41.632 | 478 | 261 | 9 | 36 | 508 | 40 | 504 | 1.12e-130 | 389 |
| Msa0971880 | MtrunA17_Chr1g0160851 | 42.857 | 483 | 260 | 9 | 29 | 508 | 26 | 495 | 4.47e-130 | 388 |
| Msa0971880 | MtrunA17_Chr5g0395321 | 41.006 | 517 | 278 | 10 | 9 | 520 | 14 | 508 | 2.56e-127 | 382 |
| Msa0971880 | MtrunA17_Chr5g0395331 | 41.532 | 496 | 271 | 10 | 20 | 508 | 20 | 503 | 3.29e-126 | 378 |
| Msa0971880 | MtrunA17_Chr1g0200961 | 40.358 | 503 | 276 | 8 | 16 | 508 | 7 | 495 | 3.79e-124 | 372 |
| Msa0971880 | MtrunA17_Chr1g0164211 | 41.875 | 480 | 265 | 8 | 31 | 508 | 25 | 492 | 6.05e-124 | 372 |
| Msa0971880 | MtrunA17_Chr8g0355961 | 42.316 | 475 | 262 | 8 | 36 | 508 | 40 | 504 | 1.08e-123 | 372 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0971880 | AT3G52970.1 | 63.867 | 512 | 173 | 9 | 9 | 513 | 10 | 516 | 0.0 | 645 |
| Msa0971880 | AT3G52970.2 | 62.286 | 525 | 174 | 9 | 9 | 513 | 10 | 530 | 0.0 | 639 |
| Msa0971880 | AT2G45550.1 | 40.272 | 514 | 292 | 8 | 1 | 508 | 1 | 505 | 1.80e-126 | 379 |
| Msa0971880 | AT2G45560.1 | 40.192 | 520 | 294 | 9 | 1 | 513 | 1 | 510 | 2.99e-126 | 379 |
| Msa0971880 | AT2G45570.1 | 41.226 | 473 | 263 | 7 | 46 | 512 | 47 | 510 | 6.77e-122 | 367 |
| Msa0971880 | AT3G61040.1 | 40.461 | 477 | 270 | 8 | 34 | 508 | 30 | 494 | 9.22e-120 | 362 |
| Msa0971880 | AT1G33720.1 | 40.000 | 480 | 274 | 7 | 38 | 512 | 39 | 509 | 1.26e-118 | 359 |
| Msa0971880 | AT2G45580.1 | 38.166 | 469 | 273 | 8 | 47 | 508 | 48 | 506 | 2.90e-109 | 335 |
| Msa0971880 | AT5G07990.1 | 35.050 | 505 | 314 | 7 | 10 | 509 | 6 | 501 | 3.44e-103 | 319 |
| Msa0971880 | AT4G12300.1 | 36.555 | 476 | 289 | 7 | 37 | 509 | 42 | 507 | 7.55e-97 | 303 |
Find 148 sgRNAs with CRISPR-Local
Find 392 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGAATTTGCCAACATCAA+CGG | 0.594493 | 6_4:-4006530 | None:intergenic |
| AAATCCAATCAAAGGAGTTG+AGG | 0.566927 | 6_4:-4007779 | None:intergenic |
| AACAACAAGCACACTAGAAT+GGG | 0.458230 | 6_4:+4007320 | Msa0971880:CDS |
| AACAACGATTCAGCTCTTGC+AGG | 0.465028 | 6_4:+4006286 | Msa0971880:CDS |
| AACCCTAACGAGAGTGCAAA+TGG | 0.453643 | 6_4:+4007371 | Msa0971880:CDS |
| AACGGAGCATCCCACACTTT+TGG | 0.279393 | 6_4:-4007609 | None:intergenic |
| AAGCACACTAGAATGGGCGA+TGG | 0.672949 | 6_4:+4007326 | Msa0971880:CDS |
| AAGGTTTATGAGGCCATGAA+AGG | 0.563166 | 6_4:+4006313 | Msa0971880:CDS |
| AAGGTTTATGCAGCCAAACA+TGG | 0.595052 | 6_4:+4007647 | Msa0971880:CDS |
| AATAGGCTCTGATAGGAAAA+TGG | 0.341408 | 6_4:+4007407 | Msa0971880:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TTTACGAGACAGTATTGTAA+AGG | - | chr6_4:4006182-4006201 | None:intergenic | 30.0% | |
| AAAGAATTTGCCAACATCAA+CGG | - | chr6_4:4006533-4006552 | None:intergenic | 30.0% | |
| AAAAAATAAGGTTCCCAATG+AGG | - | chr6_4:4006573-4006592 | None:intergenic | 30.0% | |
| AGGATGGAAAATGATATTGT+TGG | + | chr6_4:4006793-4006812 | Msa0971880:CDS | 30.0% | |
| GTTCTTGAAGTAAAACTGTA+AGG | - | chr6_4:4006883-4006902 | None:intergenic | 30.0% | |
| AATCCACTGTTAATTGCTTT+AGG | + | chr6_4:4007099-4007118 | Msa0971880:intron | 30.0% | |
| ATACCTAAAGCAATTAACAG+TGG | - | chr6_4:4007105-4007124 | None:intergenic | 30.0% | |
| GCATGCATGTTAGAAATATA+GGG | + | chr6_4:4007138-4007157 | Msa0971880:intron | 30.0% | |
| CATGCATGTTAGAAATATAG+GGG | + | chr6_4:4007139-4007158 | Msa0971880:intron | 30.0% | |
| ATTGATAGAGAGAAGAAACA+TGG | + | chr6_4:4007233-4007252 | Msa0971880:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_4 | gene | 4005998 | 4007938 | 4005998 | ID=Msa0971880;Name=Msa0971880 |
| chr6_4 | mRNA | 4005998 | 4007938 | 4005998 | ID=Msa0971880-mRNA-1;Parent=Msa0971880;Name=Msa0971880-mRNA-1;_AED=0.03;_eAED=0.03;_QI=0|0|0|1|1|1|2|0|522 |
| chr6_4 | exon | 4005998 | 4006921 | 4005998 | ID=Msa0971880-mRNA-1:exon:1755;Parent=Msa0971880-mRNA-1 |
| chr6_4 | exon | 4007294 | 4007938 | 4007294 | ID=Msa0971880-mRNA-1:exon:1756;Parent=Msa0971880-mRNA-1 |
| chr6_4 | CDS | 4005998 | 4006921 | 4005998 | ID=Msa0971880-mRNA-1:cds;Parent=Msa0971880-mRNA-1 |
| chr6_4 | CDS | 4007294 | 4007938 | 4007294 | ID=Msa0971880-mRNA-1:cds;Parent=Msa0971880-mRNA-1 |
| Gene Sequence |
>Msa0971880 ATGGATGTGGCTTTGGTATTGGCTATTTTGGGTTTGGTATTGGCTATTTTGGTATGGATGTGGCTGGCAATGGTGATGGAACATAGAAGAGTGAAACTTGGTCATCAGCTTCCACCTGGACCAAGATGTTGGCCAGTGGTTGGCAACATTTTCCAGCTAGGGCTGTCACCACCACACGAGTCCTTTACAATACTGTCTCGTAAACATGGTCCTATAATGACCCTTTGGCTAGGTTCCATGTGCACCGTGGTTGTCTCTTCTTGTGAAGCAGCCCGTGACATGTTCAAAAACAACGATTCAGCTCTTGCAGGAAGGAAGGTTTATGAGGCCATGAAAGGGAATCATAACCATGGTAGTGAAGGCTCACTCATAACTTCTCAATATGATGCGCACTGGCGCATGCTTAGGCGCTTGAGCACCACTGAGTTCTTTGTGACCAGTCGCTTAGACGCCATGCGAGGTGTGCGTACAAAATGCATAGACCGCATGGTTCACTTGATAGATGAAGCTGCTGCAGAGTCTAGTAATTGTGCCGTTGATGTTGGCAAATTCTTTTTCTTGATGGCTTTTAACCTCATTGGGAACCTTATTTTTTCAAAGGATTTGTTAGACCCTGGAATGGAGAGAGGGGCTAGATTCTATTATCATGCGATTAAGGTTATGAAATATGCTGGGAAACCCAACGTTGCAGATTTCTTCCCCATATTGAAGTGGCTTGACCCTCAAGGTATAAGGAGAAACACACAGTTCCATGTTGAAAGAGCTTTTGAGATAGCAGGATGGTTCATCAAACAAAGGATGGAAAATGATATTGTTGGAAATGGAAACAGTAAAGACTTCTTGGATGTGCTCTTGCAGTTTCGTGGGGATGGTGTCAGCGGGCCTTACAGTTTTACTTCAAGAACTATTAACGTTGTTGTCTTTGAAATGTTCACTGCAGGGACAGACACAACAACAAGCACACTAGAATGGGCGATGGCGGAGCTTCTGCACAACCCAAGAACCCTAACGAGAGTGCAAATGGAACTAAGGAGCAAAATAGGCTCTGATAGGAAAATGGAAGAAAAGGACATAGAGAGTCTTCCATACCTCAAAGCAGTAATCAAGGAGACGTTGAGACTTCACCCACCTCTTCCTTTTTTGGTTCCTCACATGGCCATGGACTCTTGCATGATTAGAGACTACTTCATTCCAAAAGAGACACAAATTTTAGTGAATGTTTGGGCAATTGGGAGGGATCCAAAAGTGTGGGATGCTCCGTTATTGTTCTGGCCAGAAAGGTTTATGCAGCCAAACATGGCAGATTACAAAGGACACCATTTTGAGTATATACCTTTTGGTTCGGGTCGGAGAATGTGCCCGGCATTGCCGCTTGCCTCGCGTGTGCTTCCATTGGCCCTAGGCTCCCTCCTCAACTCCTTTGATTGGATTTTGTCTGATGGTCTTAAGCCAGAGGAGATGGACATGACAGAGGGAATGGGGATAACTTTGAGAAAAGCTGTTCCTTTGAAAGTCATACCTGTACCTTATAAAGGAAGTCCTGTTGCTGCTTCTATTGCAGGGGAATGA |
| Protein sequence |
>Msa0971880 MDVALVLAILGLVLAILVWMWLAMVMEHRRVKLGHQLPPGPRCWPVVGNIFQLGLSPPHESFTILSRKHGPIMTLWLGSMCTVVVSSCEAARDMFKNNDSALAGRKVYEAMKGNHNHGSEGSLITSQYDAHWRMLRRLSTTEFFVTSRLDAMRGVRTKCIDRMVHLIDEAAAESSNCAVDVGKFFFLMAFNLIGNLIFSKDLLDPGMERGARFYYHAIKVMKYAGKPNVADFFPILKWLDPQGIRRNTQFHVERAFEIAGWFIKQRMENDIVGNGNSKDFLDVLLQFRGDGVSGPYSFTSRTINVVVFEMFTAGTDTTTSTLEWAMAELLHNPRTLTRVQMELRSKIGSDRKMEEKDIESLPYLKAVIKETLRLHPPLPFLVPHMAMDSCMIRDYFIPKETQILVNVWAIGRDPKVWDAPLLFWPERFMQPNMADYKGHHFEYIPFGSGRRMCPALPLASRVLPLALGSLLNSFDWILSDGLKPEEMDMTEGMGITLRKAVPLKVIPVPYKGSPVAASIAGE* |
