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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1011960 | GAU33112.1 | 82.708 | 613 | 105 | 1 | 1 | 613 | 9 | 620 | 0.0 | 1050 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1011960 | sp|Q9LHA8|HS704_ARATH | 67.541 | 610 | 194 | 3 | 1 | 608 | 1 | 608 | 0.0 | 833 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1011960 | A0A2Z6N8I6 | 82.708 | 613 | 105 | 1 | 1 | 613 | 9 | 620 | 0.0 | 1050 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0721280 | Msa1011960 | 0.802203 | 6.272613e-49 | -8.615850e-47 |
| Msa0962840 | Msa1011960 | 0.812238 | 4.687260e-51 | -8.615850e-47 |
| Msa1011960 | Msa1012000 | 0.987726 | 2.600744e-171 | -8.615850e-47 |
| Msa1011960 | Msa1398090 | 0.802014 | 6.859083e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1011960 | MtrunA17_Chr7g0223621 | 80.291 | 619 | 121 | 1 | 1 | 619 | 1 | 618 | 0.0 | 1032 |
| Msa1011960 | MtrunA17_Chr7g0223711 | 78.514 | 619 | 133 | 0 | 1 | 619 | 1 | 619 | 0.0 | 1008 |
| Msa1011960 | MtrunA17_Chr8g0350731 | 79.445 | 613 | 125 | 1 | 1 | 613 | 29 | 640 | 0.0 | 998 |
| Msa1011960 | MtrunA17_Chr7g0223751 | 74.878 | 613 | 153 | 1 | 1 | 613 | 1 | 612 | 0.0 | 951 |
| Msa1011960 | MtrunA17_Chr7g0223701 | 74.074 | 621 | 151 | 4 | 1 | 612 | 1 | 620 | 0.0 | 932 |
| Msa1011960 | MtrunA17_Chr7g0223631 | 73.183 | 619 | 151 | 3 | 1 | 619 | 1 | 604 | 0.0 | 908 |
| Msa1011960 | MtrunA17_Chr7g0223741 | 73.401 | 594 | 158 | 0 | 1 | 594 | 1 | 594 | 0.0 | 907 |
| Msa1011960 | MtrunA17_Chr7g0223731 | 71.615 | 613 | 173 | 1 | 1 | 613 | 1 | 612 | 0.0 | 897 |
| Msa1011960 | MtrunA17_Chr7g0223031 | 70.636 | 613 | 179 | 1 | 1 | 613 | 1 | 612 | 0.0 | 892 |
| Msa1011960 | MtrunA17_Chr7g0248131 | 70.388 | 618 | 177 | 5 | 1 | 613 | 1 | 617 | 0.0 | 877 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1011960 | AT3G12580.1 | 67.541 | 610 | 194 | 3 | 1 | 608 | 1 | 608 | 0.0 | 833 |
| Msa1011960 | AT5G02500.1 | 66.393 | 610 | 201 | 3 | 1 | 608 | 1 | 608 | 0.0 | 826 |
| Msa1011960 | AT5G02490.1 | 65.082 | 610 | 209 | 3 | 1 | 608 | 1 | 608 | 0.0 | 811 |
| Msa1011960 | AT3G09440.1 | 65.902 | 610 | 204 | 3 | 1 | 608 | 1 | 608 | 0.0 | 810 |
| Msa1011960 | AT3G09440.4 | 65.902 | 610 | 204 | 3 | 1 | 608 | 1 | 608 | 0.0 | 810 |
| Msa1011960 | AT3G09440.2 | 65.902 | 610 | 204 | 3 | 1 | 608 | 1 | 608 | 0.0 | 810 |
| Msa1011960 | AT3G09440.3 | 65.902 | 610 | 204 | 3 | 1 | 608 | 1 | 608 | 0.0 | 810 |
| Msa1011960 | AT1G56410.1 | 64.065 | 615 | 215 | 4 | 1 | 613 | 1 | 611 | 0.0 | 794 |
| Msa1011960 | AT1G16030.1 | 63.561 | 601 | 215 | 3 | 10 | 608 | 9 | 607 | 0.0 | 786 |
| Msa1011960 | AT5G28540.1 | 53.135 | 606 | 274 | 7 | 7 | 608 | 35 | 634 | 0.0 | 627 |
Find 110 sgRNAs with CRISPR-Local
Find 312 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGCAACACAAGAAGGAG+TGG | 0.623125 | 7_1:+16918386 | None:intergenic |
| AAAGATGCGGGTGATATTGC+TGG | 0.420636 | 7_1:-16917622 | Msa1011960:CDS |
| AAAGGGATGGATGTGTTCCT+AGG | 0.489586 | 7_1:+16916851 | None:intergenic |
| AAATAATGTCTTTGAAGTCA+AGG | 0.528245 | 7_1:-16917452 | Msa1011960:CDS |
| AAATATGACGGAGTTGGTAT+AGG | 0.426037 | 7_1:-16918501 | Msa1011960:CDS |
| AAATGTGAATATTTGCTTGA+TGG | 0.387306 | 7_1:-16916371 | Msa1011960:CDS |
| AACCCAACAAACACTGTCTT+TGG | 0.342536 | 7_1:-16918312 | Msa1011960:intron |
| AACGATTGTTGTCAACTACA+AGG | 0.537929 | 7_1:-16917794 | Msa1011960:CDS |
| AATCAATGAACCGACTGCAG+CGG | 0.648971 | 7_1:-16917581 | Msa1011960:CDS |
| AATGGTGAATCACTTCGTGA+AGG | 0.663773 | 7_1:-16917383 | Msa1011960:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TTAGTAAAAGCAACACAAGA+AGG | + | chr7_1:16916409-16916428 | None:intergenic | 30.0% | |
| TAGCATCTGCAAAATCAAAA+TGG | + | chr7_1:16916879-16916898 | None:intergenic | 30.0% | |
| TGACATAGATGTTATATGTG+AGG | - | chr7_1:16917542-16917561 | Msa1011960:CDS | 30.0% | |
| GACATAGATGTTATATGTGA+GGG | - | chr7_1:16917543-16917562 | Msa1011960:CDS | 30.0% | |
| AGAAATAAATGGAGATCTCA+TGG | - | chr7_1:16917902-16917921 | Msa1011960:intron | 30.0% | |
| TGTCGATATTAAGGTTTATG+AGG | - | chr7_1:16918004-16918023 | Msa1011960:intron | 30.0% | |
| GTCGATATTAAGGTTTATGA+GGG | - | chr7_1:16918005-16918024 | Msa1011960:intron | 30.0% | |
| AGTTAATGCAGTTAATGCAT+TGG | - | chr7_1:16918295-16918314 | Msa1011960:intron | 30.0% | |
| ACTTTGGGCATGAAAAAAAA+TGG | - | chr7_1:16918506-16918525 | Msa1011960:CDS | 30.0% | |
| TTAGTAAAAGCAACACAAGA+AGG | + | chr7_1:16916409-16916428 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_1 | gene | 16916277 | 16918532 | 16916277 | ID=Msa1011960;Name=Msa1011960 |
| chr7_1 | mRNA | 16916277 | 16918532 | 16916277 | ID=Msa1011960-mRNA-1;Parent=Msa1011960;Name=Msa1011960-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0|0|0|1|1|1|2|0|619 |
| chr7_1 | exon | 16918313 | 16918532 | 16918313 | ID=Msa1011960-mRNA-1:exon:4253;Parent=Msa1011960-mRNA-1 |
| chr7_1 | exon | 16916277 | 16917916 | 16916277 | ID=Msa1011960-mRNA-1:exon:4252;Parent=Msa1011960-mRNA-1 |
| chr7_1 | CDS | 16918313 | 16918532 | 16918313 | ID=Msa1011960-mRNA-1:cds;Parent=Msa1011960-mRNA-1 |
| chr7_1 | CDS | 16916277 | 16917916 | 16916277 | ID=Msa1011960-mRNA-1:cds;Parent=Msa1011960-mRNA-1 |
| Gene Sequence |
>Msa1011960 ATGGCAGAGAAATATGACGGAGTTGGTATAGGAATTGACCTTGGCACAACATACTCATGTGTTGGAGTATGGCAGGGGCAAAAAGATCGTGTAGAAATAATTCACAATGATCAAGGAAATAAAACCACTCCTTCTTGTGTTGCTTTTACTAATTCTCAAAGATTGATTGGTGATGCTGCCAAAAATCAAGCTTCCTCTAACCCAACAAACACTGTCTTTGATGCTAAGAGGTTGATTGGAAGGAAATATAGTGATTCTGTTACTCAAAATGATATTATATTGTGGCCTTTTAAGGTCATTGCCGGGGATAATGACAAACCAACGATTGTTGTCAACTACAAGGGCGAAGAAAAACACCTCGTTGCTGAAGAAATATCAGCTATGATTCTCACGCAGATGCGAGAGATTGCAGGGGCATTTTTGGAGGCATCTGTTAAGAATGCAGTGATTACTGTACCTTCTTATTTTAATGATTCACAGCGAAGAGCTACCAAAGATGCGGGTGATATTGCTGGTCTCAATGTAATGCGGATAATCAATGAACCGACTGCAGCGGCTCTTGCATATGGCCTTCAAAAAAGAGCTAATTGTGTTGAAGAGAGGAAAATTTTCATTTTTGATCTTGGTGGTGGAACTTTTGATGTCTCTCTCCTTACAATTAAAAATAATGTCTTTGAAGTCAAGGCCACTTCTGGAGACACTCACCTCGGAGGAGAGGACTTTGATAATCGAATGGTGAATCACTTCGTGAAGGAATTTAAGAGAAAGAATAAAGTGGATATTGGTGTGAACTCCAAAGCCCTAAGGAGATTGAAAACTGCATGCGAAAAGGCAAAAAGGACACTTTCATATGATACTGAGGCCACAATTGACATAGATGTTATATGTGAGGGTATTGACTTCTGTTCATCAATTACTCGAGCCAAGTTTGAGCAACTTAACATGGACCTCTTTGAAAAGTGTATGGAGACTGTTGAAAGTTGCATTGCTGATGCTAAGATGGACAAGAGTAGTGTAGATGACGTTGTCCTTGTTGGTGGTTCTTCTAGAATTCCCAAAGTGAAGCAGCTACTGCAGGACTTTTTCAATGGGAAAGAATTATGCAAGAGCATTAACCCTGACGAGGTTGTTGCTTGTGGAGCAGCTATTCAGGCTGCTTTGCTGAGTGAAGGCGTTAAAAGTATTCCAAACTTGATTCTGCGAGATGTCACTTCATTGTCACTTGGTTTAGAAATAAATGGAGATCTCATGGATGTCGTGATTCCTAGGAACACATCCATCCCTTTCAAAAAGACAAAAACATACTACACTGTGAAAGATAACCAATGCAGTGTCGATATTAAGGTTTATGAGGGTGAGAGAATGAGAGCCAGTGATAATAACTTGCTGGGTTTGTTTAATTTTTCTGTTCCTCCTGCTCCTCGAGGTAGCCTTCCTATAAAAGAATGCTTTTCTATAGATGTTGATGGTATATTAAACGTCTCTGCAGAGGAAGAATCCAGCGGCAATAAAAGAGATATTACAATAACGAATGAAAAGGGAAGGCTGTCAAGGGATGAAATTGAGAGAATGATTCAAGAAGCTAAGAATTTTAAGGCTGAAGACATGAAGTTTAAGAAGAAAGTTAATGCAGTTAATGCATTGGAGGACTATCTTTACAATGTGAGGAAAGCTATGAAGAATAGGAGTGTTAGTTCTTTGCTTCCAACACAAAGCAAAAATAAGATCACTTCTCTAATTACAAAATGTGAATATTTGCTTGATGGTGACAAGAAGGAAGAAACCAATGTGTTTGTGGACATGTTGAAGGAGCTTGAGAGCATCTCTGAATCTACTTTGGGCATGAAAAAAAATGGTTAG |
| Protein sequence |
>Msa1011960 MAEKYDGVGIGIDLGTTYSCVGVWQGQKDRVEIIHNDQGNKTTPSCVAFTNSQRLIGDAAKNQASSNPTNTVFDAKRLIGRKYSDSVTQNDIILWPFKVIAGDNDKPTIVVNYKGEEKHLVAEEISAMILTQMREIAGAFLEASVKNAVITVPSYFNDSQRRATKDAGDIAGLNVMRIINEPTAAALAYGLQKRANCVEERKIFIFDLGGGTFDVSLLTIKNNVFEVKATSGDTHLGGEDFDNRMVNHFVKEFKRKNKVDIGVNSKALRRLKTACEKAKRTLSYDTEATIDIDVICEGIDFCSSITRAKFEQLNMDLFEKCMETVESCIADAKMDKSSVDDVVLVGGSSRIPKVKQLLQDFFNGKELCKSINPDEVVACGAAIQAALLSEGVKSIPNLILRDVTSLSLGLEINGDLMDVVIPRNTSIPFKKTKTYYTVKDNQCSVDIKVYEGERMRASDNNLLGLFNFSVPPAPRGSLPIKECFSIDVDGILNVSAEEESSGNKRDITITNEKGRLSRDEIERMIQEAKNFKAEDMKFKKKVNAVNALEDYLYNVRKAMKNRSVSSLLPTQSKNKITSLITKCEYLLDGDKKEETNVFVDMLKELESISESTLGMKKNG* |
