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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0165300 | XP_024635341.1 | 99.286 | 560 | 4 | 0 | 74 | 633 | 1 | 560 | 0.0 | 1159 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0165300 | sp|Q54Y26|NDRA_DICDI | 46.774 | 496 | 229 | 5 | 96 | 561 | 15 | 505 | 9.08e-148 | 441 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0165300 | A0A072VLK6 | 99.286 | 560 | 4 | 0 | 74 | 633 | 1 | 560 | 0.0 | 1159 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000490 | Msa0165300 | -0.809273 | 2.052963e-50 | -8.615850e-47 |
| Msa0002560 | Msa0165300 | 0.822059 | 2.900670e-53 | -8.615850e-47 |
| Msa0002680 | Msa0165300 | 0.813458 | 2.533723e-51 | -8.615850e-47 |
| Msa0003050 | Msa0165300 | 0.814411 | 1.561874e-51 | -8.615850e-47 |
| Msa0003220 | Msa0165300 | 0.839955 | 1.162820e-57 | -8.615850e-47 |
| Msa0005000 | Msa0165300 | -0.816959 | 4.225123e-52 | -8.615850e-47 |
| Msa0005270 | Msa0165300 | 0.800283 | 1.550134e-48 | -8.615850e-47 |
| Msa0008220 | Msa0165300 | 0.829786 | 4.236875e-55 | -8.615850e-47 |
| Msa0010020 | Msa0165300 | 0.802042 | 6.769135e-49 | -8.615850e-47 |
| Msa0010770 | Msa0165300 | 0.850371 | 1.772645e-60 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0165300 | MtrunA17_Chr1g0183651 | 99.286 | 560 | 4 | 0 | 74 | 633 | 1 | 560 | 0.0 | 1159 |
| Msa0165300 | MtrunA17_Chr7g0261491 | 78.201 | 578 | 80 | 5 | 74 | 608 | 1 | 575 | 0.0 | 930 |
| Msa0165300 | MtrunA17_Chr1g0187581 | 78.927 | 522 | 106 | 3 | 74 | 594 | 1 | 519 | 0.0 | 857 |
| Msa0165300 | MtrunA17_Chr1g0167351 | 74.094 | 552 | 121 | 7 | 74 | 622 | 1 | 533 | 0.0 | 811 |
| Msa0165300 | MtrunA17_Chr1g0167311 | 71.154 | 520 | 141 | 5 | 74 | 591 | 1 | 513 | 0.0 | 756 |
| Msa0165300 | MtrunA17_Chr3g0135951 | 68.640 | 456 | 133 | 2 | 117 | 562 | 18 | 473 | 0.0 | 662 |
| Msa0165300 | MtrunA17_Chr2g0299781 | 64.431 | 492 | 155 | 4 | 109 | 585 | 24 | 510 | 0.0 | 641 |
| Msa0165300 | MtrunA17_Chr1g0153321 | 62.423 | 487 | 174 | 5 | 105 | 587 | 20 | 501 | 0.0 | 620 |
| Msa0165300 | MtrunA17_Chr6g0478601 | 39.898 | 391 | 218 | 6 | 131 | 519 | 53 | 428 | 2.45e-86 | 279 |
| Msa0165300 | MtrunA17_Chr4g0018201 | 41.896 | 327 | 170 | 6 | 187 | 508 | 753 | 1064 | 1.31e-75 | 262 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0165300 | AT2G20470.2 | 75.623 | 562 | 121 | 5 | 74 | 622 | 1 | 559 | 0.0 | 853 |
| Msa0165300 | AT2G20470.1 | 75.623 | 562 | 121 | 5 | 74 | 622 | 1 | 559 | 0.0 | 853 |
| Msa0165300 | AT4G14350.3 | 75.812 | 554 | 122 | 3 | 74 | 626 | 1 | 543 | 0.0 | 851 |
| Msa0165300 | AT4G14350.2 | 76.321 | 549 | 118 | 3 | 74 | 621 | 1 | 538 | 0.0 | 850 |
| Msa0165300 | AT4G14350.1 | 76.321 | 549 | 118 | 3 | 74 | 621 | 1 | 538 | 0.0 | 850 |
| Msa0165300 | AT4G14350.4 | 76.321 | 549 | 118 | 3 | 74 | 621 | 1 | 538 | 0.0 | 850 |
| Msa0165300 | AT3G23310.1 | 74.640 | 556 | 128 | 3 | 74 | 626 | 1 | 546 | 0.0 | 845 |
| Msa0165300 | AT2G20470.3 | 78.544 | 522 | 104 | 4 | 74 | 590 | 1 | 519 | 0.0 | 844 |
| Msa0165300 | AT1G03920.1 | 77.127 | 529 | 102 | 2 | 74 | 584 | 1 | 528 | 0.0 | 830 |
| Msa0165300 | AT1G03920.3 | 77.127 | 529 | 102 | 2 | 74 | 584 | 1 | 528 | 0.0 | 830 |
Find 151 sgRNAs with CRISPR-Local
Find 659 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACTGGCAAAAGAACAGG+AGG | 0.690348 | 1_4:-45749952 | Msa0165300:CDS |
| AAAAGAAACGTACCCATCCC+AGG | 0.587454 | 1_4:+45746401 | None:intergenic |
| AAAAGCTGGTCCATGGAGGA+AGG | 0.592704 | 1_4:-45747458 | Msa0165300:intron |
| AAAAGGTGCTGATGAAATAA+AGG | 0.383499 | 1_4:-45747812 | Msa0165300:intron |
| AAAATCATCAACACCCATCT+TGG | 0.456102 | 1_4:+45751650 | None:intergenic |
| AAAGAAGTTGGCTGATGCCG+AGG | 0.601692 | 1_4:-45751748 | Msa0165300:CDS |
| AAAGCATTTGTCTGTAACGC+TGG | 0.509045 | 1_4:-45744053 | Msa0165300:three_prime_UTR |
| AAATCAGAGATGCTTCGCAG+AGG | 0.699794 | 1_4:-45750750 | Msa0165300:CDS |
| AAATGAAGAATCTTCAGGAG+AGG | 0.618226 | 1_4:-45754271 | Msa0165300:CDS |
| AAATGGATTCTGCGAGGAGT+TGG | 0.481744 | 1_4:-45754466 | Msa0165300:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATTCAATTCAGGTACATACA+TGG | - | chr1_4:45744173-45744192 | Msa0165300:three_prime_UTR | 30.0% | |
| TGATTATCGAGACAAAGAAA+TGG | - | chr1_4:45744422-45744441 | Msa0165300:three_prime_UTR | 30.0% | |
| GTATATCGAAAATCACTACA+AGG | - | chr1_4:45744608-45744627 | Msa0165300:intron | 30.0% | |
| AAATGATTAAATCTGGCACA+TGG | - | chr1_4:45744995-45745014 | Msa0165300:intron | 30.0% | |
| TCGATTTAAATATTCACCCA+GGG | + | chr1_4:45745038-45745057 | None:intergenic | 30.0% | |
| ACAAAACAGAACTCAAAATG+AGG | + | chr1_4:45745096-45745115 | None:intergenic | 30.0% | |
| TATAAAAGGAGTAGATCAGA+TGG | - | chr1_4:45745200-45745219 | Msa0165300:intron | 30.0% | |
| TACTGTAGTCAAATAACTAG+AGG | - | chr1_4:45745227-45745246 | Msa0165300:intron | 30.0% | |
| TATATGACAGAACATTATGG+CGG | - | chr1_4:45745324-45745343 | Msa0165300:intron | 30.0% | |
| TGATATGCACATGCATATTA+TGG | - | chr1_4:45745464-45745483 | Msa0165300:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_4 | gene | 45743987 | 45754940 | 45743987 | ID=Msa0165300;Name=Msa0165300 |
| chr1_4 | mRNA | 45743987 | 45754940 | 45743987 | ID=Msa0165300-mRNA-1;Parent=Msa0165300;Name=Msa0165300-mRNA-1;_AED=0.10;_eAED=0.10;_QI=16|1|1|1|0.92|0.92|14|463|633 |
| chr1_4 | exon | 45743987 | 45744589 | 45743987 | ID=Msa0165300-mRNA-1:exon:13086;Parent=Msa0165300-mRNA-1 |
| chr1_4 | exon | 45744729 | 45744785 | 45744729 | ID=Msa0165300-mRNA-1:exon:13085;Parent=Msa0165300-mRNA-1 |
| chr1_4 | exon | 45746414 | 45746498 | 45746414 | ID=Msa0165300-mRNA-1:exon:13084;Parent=Msa0165300-mRNA-1 |
| chr1_4 | exon | 45747459 | 45747506 | 45747459 | ID=Msa0165300-mRNA-1:exon:13083;Parent=Msa0165300-mRNA-1 |
| chr1_4 | exon | 45747600 | 45747713 | 45747600 | ID=Msa0165300-mRNA-1:exon:13082;Parent=Msa0165300-mRNA-1 |
| chr1_4 | exon | 45747813 | 45747944 | 45747813 | ID=Msa0165300-mRNA-1:exon:13081;Parent=Msa0165300-mRNA-1 |
| chr1_4 | exon | 45749243 | 45749327 | 45749243 | ID=Msa0165300-mRNA-1:exon:13080;Parent=Msa0165300-mRNA-1 |
| chr1_4 | exon | 45749633 | 45749712 | 45749633 | ID=Msa0165300-mRNA-1:exon:13079;Parent=Msa0165300-mRNA-1 |
| chr1_4 | exon | 45749946 | 45750162 | 45749946 | ID=Msa0165300-mRNA-1:exon:13078;Parent=Msa0165300-mRNA-1 |
| chr1_4 | exon | 45750386 | 45750627 | 45750386 | ID=Msa0165300-mRNA-1:exon:13077;Parent=Msa0165300-mRNA-1 |
| chr1_4 | exon | 45750746 | 45750829 | 45750746 | ID=Msa0165300-mRNA-1:exon:13076;Parent=Msa0165300-mRNA-1 |
| chr1_4 | exon | 45751611 | 45751785 | 45751611 | ID=Msa0165300-mRNA-1:exon:13075;Parent=Msa0165300-mRNA-1 |
| chr1_4 | exon | 45754263 | 45754524 | 45754263 | ID=Msa0165300-mRNA-1:exon:13074;Parent=Msa0165300-mRNA-1 |
| chr1_4 | exon | 45754744 | 45754940 | 45754744 | ID=Msa0165300-mRNA-1:exon:13073;Parent=Msa0165300-mRNA-1 |
| chr1_4 | five_prime_UTR | 45754925 | 45754940 | 45754925 | ID=Msa0165300-mRNA-1:five_prime_utr;Parent=Msa0165300-mRNA-1 |
| chr1_4 | CDS | 45754744 | 45754924 | 45754744 | ID=Msa0165300-mRNA-1:cds;Parent=Msa0165300-mRNA-1 |
| chr1_4 | CDS | 45754263 | 45754524 | 45754263 | ID=Msa0165300-mRNA-1:cds;Parent=Msa0165300-mRNA-1 |
| chr1_4 | CDS | 45751611 | 45751785 | 45751611 | ID=Msa0165300-mRNA-1:cds;Parent=Msa0165300-mRNA-1 |
| chr1_4 | CDS | 45750746 | 45750829 | 45750746 | ID=Msa0165300-mRNA-1:cds;Parent=Msa0165300-mRNA-1 |
| chr1_4 | CDS | 45750386 | 45750627 | 45750386 | ID=Msa0165300-mRNA-1:cds;Parent=Msa0165300-mRNA-1 |
| chr1_4 | CDS | 45749946 | 45750162 | 45749946 | ID=Msa0165300-mRNA-1:cds;Parent=Msa0165300-mRNA-1 |
| chr1_4 | CDS | 45749633 | 45749712 | 45749633 | ID=Msa0165300-mRNA-1:cds;Parent=Msa0165300-mRNA-1 |
| chr1_4 | CDS | 45749243 | 45749327 | 45749243 | ID=Msa0165300-mRNA-1:cds;Parent=Msa0165300-mRNA-1 |
| chr1_4 | CDS | 45747813 | 45747944 | 45747813 | ID=Msa0165300-mRNA-1:cds;Parent=Msa0165300-mRNA-1 |
| chr1_4 | CDS | 45747600 | 45747713 | 45747600 | ID=Msa0165300-mRNA-1:cds;Parent=Msa0165300-mRNA-1 |
| chr1_4 | CDS | 45747459 | 45747506 | 45747459 | ID=Msa0165300-mRNA-1:cds;Parent=Msa0165300-mRNA-1 |
| chr1_4 | CDS | 45746414 | 45746498 | 45746414 | ID=Msa0165300-mRNA-1:cds;Parent=Msa0165300-mRNA-1 |
| chr1_4 | CDS | 45744729 | 45744785 | 45744729 | ID=Msa0165300-mRNA-1:cds;Parent=Msa0165300-mRNA-1 |
| chr1_4 | CDS | 45744450 | 45744589 | 45744450 | ID=Msa0165300-mRNA-1:cds;Parent=Msa0165300-mRNA-1 |
| chr1_4 | three_prime_UTR | 45743987 | 45744449 | 45743987 | ID=Msa0165300-mRNA-1:three_prime_utr;Parent=Msa0165300-mRNA-1 |
| Gene Sequence |
>Msa0165300 ATGATTTCCATTAATTTCAATTTCATTTTCATTCAGCAGAAAGAAAAGACAAGAACATCGCACAGAAAATCACGCGCATCTCATCCGAAAGATACAATACATCTCTTCCTCTTCCTTTCTCATTCGCCATTCGCAATTTGGATTTTACGCTTTCCGAAATGCCCCAAGCAATTCAATTCAGAAGGAACAAGGAAGGTTGTTGATTATCGAGACAAAGAAATGGATTCTGCGAGGAGTTGGCTTTCGAAGTTGCAGCCTCGTGATAAAATGAAGGCGAAGAAGAGGGATGAGGATGGTAATAATGATGGAAATGGAGATTTGACTTCACCTGTGGATGATGGGTCGCTTTCTGATGTCACGAAGCAGAAGGTTGCGGCAGCAAAGCAGTATATCGAAAATCACTACAAGGAGCAAATGAAGAATCTTCAGGAGAGGAAAGAGCGTCGAACCATCTTGGAAAAGAAGTTGGCTGATGCCGAGGTCTCCGAAGAAGATCAAAACAACTTACTTAAATTTTTAGAGAAAAAGGAAACTGAATATATGCGCCTTCAAAGAGCCAAGATGGGTGTTGATGATTTTGAGTTATTGACTATGATTGGAAAAGGTGCATTTGGGGAGGTCAGAGTTTGCAGAGAGAAGACTACTGATCATGTATACGCAATGAAAAAACTAAAGAAATCAGAGATGCTTCGCAGAGGACAGGTTGAACATGTCAAAGCGGAAAGGAATCTCCTCGCAGAGGTTGACAGCAATTGCATTGTCAAACTTTATTGCTCTTTCCAGGATGACGAGTATCTTTATCTTATTATGGAGTATCTACCGGGTGGAGATATGATGACTCTACTTATGAGAAAGGATACCTTGACTGAAGATGAAGCCAGATTTTATGTAGGAGAAACTGTTCTGGCTATTGAATCTATACACAAGCACAATTATATACATAGGGATATCAAGCCTGATAACTTATTACTTGATAGATATGGACACCTGAGACTGTCTGACTTTGGACTTTGTAAACCATTAGATTGTAGTACGCTTGAAGAAAAGGATTTTTCTGTGGGTCAGAATGTGAATGGATCTACACAGAGTGAGGAGCGCTCAGCTCCAAAACGCACACAACAAGAACAATTGCAAAACTGGCAAAAGAACAGGAGGACGCTTGCTTATTCCACTGTTGGTACACCGGATTATATTGCGCCAGAAGTTCTTTTGAAGAAAGGGTATGGGATGGAATGTGATTGGTGGTCACTTGGTGCTATCATGTATGAAATGTTGGTGGGATATCCACCTTTTTATTCTGATGATCCAATGACAACATGTAGGAAGATAGTGAACTGGAAATCTCACTTGAAATTTCCTGATGAAGCTGGGCTATCACCTGAGGCTAAAGATCTTATCAGTAGACTTTTATGTAATGTCAACCATAGGCTGGGATCAAAAGGTGCTGATGAAATAAAGGCTCATCGGTTCTTCAAAGGTGTTGAATGGGATAAACTATATCAAATTGAAGCTGCATTTATACCTGAGGTCAATGATGAATTAGATACTCAGAATTTTGAAAAGTTTGATGAGGCTGACAGCCAAACTCGACCGTCGTCAAAAGCTGGTCCATGGAGGAAGATGCTTTCATCTAAAGACTTAAATTTTGTTGGATACACATATAAGAACTTTGAAATTGTCAACGATTATCAAGTTCCTGGGATGGCTGAGCTGAAGAAGAAGCCCTCCAAATCAAAGAGACCATCCATTAAGTCGCTTTTCGATTCCGAGTCAGAGACGTCAGAGTTGTCTGAGGTGTCTGATACGTCTGCAAGTGATCGACCTCAAGGAAGCTTTTTGAATCTTTTGCCACCCAAGTTAGAGGCATCTCATAGTGAGAGGAATCTTACTCATAAGTCCTAA |
| Protein sequence |
>Msa0165300 MISINFNFIFIQQKEKTRTSHRKSRASHPKDTIHLFLFLSHSPFAIWILRFPKCPKQFNSEGTRKVVDYRDKEMDSARSWLSKLQPRDKMKAKKRDEDGNNDGNGDLTSPVDDGSLSDVTKQKVAAAKQYIENHYKEQMKNLQERKERRTILEKKLADAEVSEEDQNNLLKFLEKKETEYMRLQRAKMGVDDFELLTMIGKGAFGEVRVCREKTTDHVYAMKKLKKSEMLRRGQVEHVKAERNLLAEVDSNCIVKLYCSFQDDEYLYLIMEYLPGGDMMTLLMRKDTLTEDEARFYVGETVLAIESIHKHNYIHRDIKPDNLLLDRYGHLRLSDFGLCKPLDCSTLEEKDFSVGQNVNGSTQSEERSAPKRTQQEQLQNWQKNRRTLAYSTVGTPDYIAPEVLLKKGYGMECDWWSLGAIMYEMLVGYPPFYSDDPMTTCRKIVNWKSHLKFPDEAGLSPEAKDLISRLLCNVNHRLGSKGADEIKAHRFFKGVEWDKLYQIEAAFIPEVNDELDTQNFEKFDEADSQTRPSSKAGPWRKMLSSKDLNFVGYTYKNFEIVNDYQVPGMAELKKKPSKSKRPSIKSLFDSESETSELSEVSDTSASDRPQGSFLNLLPPKLEASHSERNLTHKS* |
