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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0375160 | XP_039688021.1 | 68.503 | 708 | 206 | 7 | 22 | 726 | 722 | 1415 | 0.0 | 977 |
| Msa0375160 | XP_039688021.1 | 78.484 | 739 | 141 | 8 | 1 | 737 | 1 | 723 | 0.0 | 1162 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0375160 | sp|Q9LMN7|WAK5_ARATH | 45.822 | 718 | 340 | 18 | 12 | 713 | 6 | 690 | 0.0 | 585 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0375160 | A0A072V215 | 74.479 | 768 | 174 | 9 | 1 | 757 | 1 | 757 | 0.0 | 1158 |
Co-expression Network
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0375160 | MtrunA17_Chr3g0125431 | 74.479 | 768 | 174 | 9 | 1 | 757 | 1 | 757 | 0.0 | 1158 |
| Msa0375160 | MtrunA17_Chr3g0125441 | 71.703 | 781 | 182 | 10 | 5 | 757 | 18 | 787 | 0.0 | 1115 |
| Msa0375160 | MtrunA17_Chr2g0279661 | 72.941 | 765 | 190 | 8 | 1 | 757 | 3 | 758 | 0.0 | 1100 |
| Msa0375160 | MtrunA17_Chr3g0125451 | 70.909 | 770 | 189 | 11 | 3 | 757 | 2 | 751 | 0.0 | 1063 |
| Msa0375160 | MtrunA17_Chr3g0125471 | 71.257 | 748 | 128 | 10 | 1 | 743 | 1 | 666 | 0.0 | 1021 |
| Msa0375160 | MtrunA17_Chr3g0125461 | 70.909 | 715 | 187 | 8 | 1 | 710 | 23 | 721 | 0.0 | 1018 |
| Msa0375160 | MtrunA17_Chr1g0158201 | 46.207 | 725 | 343 | 17 | 9 | 722 | 14 | 702 | 0.0 | 613 |
| Msa0375160 | MtrunA17_Chr1g0148501 | 45.652 | 736 | 361 | 17 | 10 | 728 | 13 | 726 | 0.0 | 607 |
| Msa0375160 | MtrunA17_Chr1g0158251 | 45.183 | 737 | 357 | 16 | 9 | 732 | 15 | 717 | 0.0 | 604 |
| Msa0375160 | MtrunA17_Chr1g0158261 | 45.714 | 735 | 347 | 19 | 9 | 732 | 15 | 708 | 0.0 | 602 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0375160 | AT1G21230.1 | 45.822 | 718 | 340 | 18 | 12 | 713 | 6 | 690 | 0.0 | 585 |
| Msa0375160 | AT1G21270.1 | 44.536 | 732 | 358 | 19 | 12 | 730 | 7 | 703 | 0.0 | 583 |
| Msa0375160 | AT1G21250.1 | 45.202 | 719 | 343 | 17 | 12 | 713 | 7 | 691 | 0.0 | 580 |
| Msa0375160 | AT1G21240.1 | 44.536 | 732 | 350 | 19 | 3 | 713 | 1 | 697 | 0.0 | 578 |
| Msa0375160 | AT1G21210.1 | 42.490 | 739 | 376 | 17 | 8 | 730 | 4 | 709 | 0.0 | 547 |
| Msa0375160 | AT1G16130.1 | 40.941 | 723 | 353 | 22 | 11 | 705 | 13 | 689 | 5.07e-159 | 479 |
| Msa0375160 | AT1G69730.1 | 39.008 | 746 | 346 | 21 | 22 | 705 | 23 | 721 | 2.27e-154 | 469 |
| Msa0375160 | AT1G16120.1 | 39.450 | 763 | 376 | 20 | 8 | 728 | 9 | 727 | 4.25e-153 | 463 |
| Msa0375160 | AT1G16160.1 | 41.102 | 708 | 341 | 21 | 31 | 705 | 41 | 705 | 8.42e-153 | 462 |
| Msa0375160 | AT1G79670.1 | 40.582 | 722 | 363 | 21 | 9 | 705 | 14 | 694 | 1.25e-150 | 457 |
Find 179 sgRNAs with CRISPR-Local
Find 239 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACAGCTGCTTCTCATGG+TGG | 0.642546 | 3_1:-74752692 | Msa0375160:CDS |
| AAACTGTTCCTTGACCACCT+TGG | 0.611684 | 3_1:+74750629 | None:intergenic |
| AAAGATTCTTCTGAGCTTGC+AGG | 0.306989 | 3_1:+74751966 | None:intergenic |
| AAAGCTTTACCACATTTCTA+TGG | 0.328352 | 3_1:+74750494 | None:intergenic |
| AACAATCGGACAATAGTACA+GGG | 0.671233 | 3_1:-74752115 | Msa0375160:CDS |
| AACAGATAGTGAAGCATGGA+GGG | 0.552028 | 3_1:-74750732 | Msa0375160:CDS |
| AACCATGAAAGAAGTGGCAA+TGG | 0.570272 | 3_1:-74749864 | Msa0375160:CDS |
| AACCCAATTACTGTGTTGAG+AGG | 0.614328 | 3_1:-74751454 | Msa0375160:CDS |
| AAGACACAAAGTACATTGCA+AGG | 0.601267 | 3_1:+74750017 | None:intergenic |
| AAGACCAACCATGAAAGAAG+TGG | 0.631305 | 3_1:-74749870 | Msa0375160:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATATCACTACCAAACTGTAT+AGG | - | chr3_1:74749769-74749788 | Msa0375160:CDS | 30.0% | |
| TCTTTCCAATTATGCATGTA+AGG | - | chr3_1:74750452-74750471 | Msa0375160:CDS | 30.0% | |
| AAAGTGATTTACTTACCAAC+CGG | - | chr3_1:74750654-74750673 | Msa0375160:CDS | 30.0% | |
| TTGCATTCATTAGCATCTAA+AGG | + | chr3_1:74750924-74750943 | None:intergenic | 30.0% | |
| TTTAGATGCTAATGAATGCA+AGG | - | chr3_1:74750923-74750942 | Msa0375160:intron | 30.0% | |
| ATCATTGTAGAATCTTTCCT+TGG | + | chr3_1:74751092-74751111 | None:intergenic | 30.0% | |
| ACTTGAAACAATAACAAGCT+AGG | - | chr3_1:74751291-74751310 | Msa0375160:intron | 30.0% | |
| ACCTTCTGATCTCAAATAAA+TGG | - | chr3_1:74751377-74751396 | Msa0375160:CDS | 30.0% | |
| ACTTATGATGCAATTTGAAC+TGG | - | chr3_1:74751423-74751442 | Msa0375160:CDS | 30.0% | |
| AGTTAAAATCTTCACTGTTG+AGG | - | chr3_1:74751702-74751721 | Msa0375160:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 74749691 | 74752731 | 74749691 | ID=Msa0375160;Name=Msa0375160 |
| chr3_1 | mRNA | 74749691 | 74752731 | 74749691 | ID=Msa0375160-mRNA-1;Parent=Msa0375160;Name=Msa0375160-mRNA-1;_AED=0.44;_eAED=0.44;_QI=0|0|0|1|1|1|3|0|757 |
| chr3_1 | exon | 74751843 | 74752731 | 74751843 | ID=Msa0375160-mRNA-1:exon:17450;Parent=Msa0375160-mRNA-1 |
| chr3_1 | exon | 74751300 | 74751494 | 74751300 | ID=Msa0375160-mRNA-1:exon:17449;Parent=Msa0375160-mRNA-1 |
| chr3_1 | exon | 74749691 | 74750880 | 74749691 | ID=Msa0375160-mRNA-1:exon:17448;Parent=Msa0375160-mRNA-1 |
| chr3_1 | CDS | 74751843 | 74752731 | 74751843 | ID=Msa0375160-mRNA-1:cds;Parent=Msa0375160-mRNA-1 |
| chr3_1 | CDS | 74751300 | 74751494 | 74751300 | ID=Msa0375160-mRNA-1:cds;Parent=Msa0375160-mRNA-1 |
| chr3_1 | CDS | 74749691 | 74750880 | 74749691 | ID=Msa0375160-mRNA-1:cds;Parent=Msa0375160-mRNA-1 |
| Gene Sequence |
>Msa0375160 ATGGCTGTGGAGTACTCAAAACAGCTGCTTCTCATGGTGGTTGTCGCTGTCCTTTATACAAAAGCAGCAACTCAACCGATATCACTACCAAACTGTATAGGAAAGTGTGGTTCCATCAAAATTCCCTTCCCATTTGGAATCACCAAAGATTGCTCCCTAGACAACACTTTCCTAATCAATTGCAAGAAAATATCTTCAACTACATCAAATTCAACAACACACATACCTTTCTTGCCAAAAACTAACCAAAGGGTCTTAAATATCTCACTTAACGGTGAACTGCGTGTTGCATGGCCAGTAGCCAGTCGTTGCTATTCAAAAGAGAGCAAACTTACACCTCAAGATATTGAGATGTCGCATTTTCATGTCGCCCCAACTCAAAACAAGTTGATAGCAGTTGGATGTGACACAATTGGACTACTCGAAGCAATTGATTCTGAAGGAAACACATACACCACTGCATGTGTGGCTTTGTGCAACAGGCTTAGTGATATTGTAGCCAATGGATCCTGTTCTGGCCCTGGTTGTTGTGAGATTTCAATACCCAAAGGTCATGTGTTTACGGAAGTAGCCTATATTTCTGAACGCGGATTGAACAATCGGACAATAGTACAGGGCTTCAATCCATGTGGTTATGCGTTTTTGGTGGAAAATGGAGCCTACAGCTTTGCAACCACAGACCTCCACAAGTTAAAGAAAAAGCTTCCTGTGTTGTTGAACTGGACAGTAGGAAACCAAACATGCCTGCAAGCTCAGAAGAATCTTTCCAATTATGCATGTAAGGCCGAGAACAGTACATGTTACGAAACAGACACCAACAAATCTGGTTACCTTTGCAGATGCTTGGATGGATATCGGGGAAATCCTTACCTCATCCATGGTTGCCAAGATGCTAATGAATGCAAGGAACCCAATTACTGTGTTGAGAGGGCGAGATGCATCAGTCGTCCAGGAAGCGACCATTGTTTATGCCCAGAAGGATATGAGGGAAACGGGAAAACTAATGGAACAAGATGCAGTCCAAAATCCAGACCAAAATCCAGTACCAAACCAAGGAAAGATTCTACAATGATCATTGCATTCAGTGTCAGCATAAGCCTTCTAGTGGTACTTATGGGAAGCTTTTATGCGCATTGGACATTAAAGAAAATAAAGCTCAATAAACTTAAAGAACAATTATTTCGACAAAACGGTGGTTTAGTGTTACAAGAACAGATAGTGAAGCATGGAGGGTCAACTGAAATAGTTAAAATCTTCACTGTTGAGGAGTTAAATGAGGCAACCAACAACTTCGATGAAGGTAAGATCTTAGGCCAAGGTGGTCAAGGAACAGTTTACAAAGGAGTGTTACAAGATAAAACAGTTGTAGCAATAAAGAAGTCCAAAATCAATGACCCAAGCCAAATTGAGCCATTCATCAATGAAGTGATTGTGCTTTCCCAGATCAACCATAGAAATGTGGTAAAGCTTTTGGGTTGTTGTTTAGAAACAGAAGTTCCATTGCTTGTATATGAATTTATTCCCAACGGTACAGTTTATGACCATCTTCATGATCAAACCCAATCTTTAAAGCTTACATGGAAGATAAGATTGAGAGTAGCAAAAGAAACTGCTGGAGTCCTAGCCTACTTGCACTCTGCTGCTTCAACGCCAATCATACATAGAGATGTGAAATCTTCAAATATATTACTAGATGGAAATCTCACTGCAAAGGTGTCTGATTTTGGAGCTTCAAGGGTTGTTCCTCTTGATAAAACTCATATAACCACTCTAGTGCAAGGAACATTGGGGTATCTTGACCCCGAGTATTTCCACACAAGCCAATTAACAGAGAAGAGTGACGTTTATAGCTTCGGGGTTGTCCTAGCAGAGCTACTGACAGGAGAGAAGGCGTTATCTTTTGGCAGGCCAGAGCTAGATAGAAACCTTGCAATGTACTTTGTGTCTTGGATGAAAGAGGATCAATTACTTCATATTCTAGACAAAAATATGGATGAGAATGAGACAAATATTGAACATCTAAAGGAAGTTGCCCTAATTGCAGAATGGTGTTTAAGGGTGAAGAGTGAGGAAAGACCAACCATGAAAGAAGTGGCAATGGGACTAGAGGGAATATTAGTTGTTGAAGAGCAGCGTTGGGGAAGAGACAATTTGTCTTCAGAAGAGGCACCAGCCATTATCAATGTTGAAGATTGTGTTGGCGGTAGTGGCGTTAATTTGTCTGAATCCTATAGCTTAAACCAGATTTCAATGTCGTCATTTGGTGGAAGATGA |
| Protein sequence |
>Msa0375160 MAVEYSKQLLLMVVVAVLYTKAATQPISLPNCIGKCGSIKIPFPFGITKDCSLDNTFLINCKKISSTTSNSTTHIPFLPKTNQRVLNISLNGELRVAWPVASRCYSKESKLTPQDIEMSHFHVAPTQNKLIAVGCDTIGLLEAIDSEGNTYTTACVALCNRLSDIVANGSCSGPGCCEISIPKGHVFTEVAYISERGLNNRTIVQGFNPCGYAFLVENGAYSFATTDLHKLKKKLPVLLNWTVGNQTCLQAQKNLSNYACKAENSTCYETDTNKSGYLCRCLDGYRGNPYLIHGCQDANECKEPNYCVERARCISRPGSDHCLCPEGYEGNGKTNGTRCSPKSRPKSSTKPRKDSTMIIAFSVSISLLVVLMGSFYAHWTLKKIKLNKLKEQLFRQNGGLVLQEQIVKHGGSTEIVKIFTVEELNEATNNFDEGKILGQGGQGTVYKGVLQDKTVVAIKKSKINDPSQIEPFINEVIVLSQINHRNVVKLLGCCLETEVPLLVYEFIPNGTVYDHLHDQTQSLKLTWKIRLRVAKETAGVLAYLHSAASTPIIHRDVKSSNILLDGNLTAKVSDFGASRVVPLDKTHITTLVQGTLGYLDPEYFHTSQLTEKSDVYSFGVVLAELLTGEKALSFGRPELDRNLAMYFVSWMKEDQLLHILDKNMDENETNIEHLKEVALIAEWCLRVKSEERPTMKEVAMGLEGILVVEEQRWGRDNLSSEEAPAIINVEDCVGGSGVNLSESYSLNQISMSSFGGR* |
