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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1384870 | XP_013461634.1 | 96.930 | 456 | 13 | 1 | 1 | 456 | 1 | 455 | 0.0 | 912 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1384870 | sp|Q9FGN8|DYAD_ARATH | 43.842 | 203 | 97 | 2 | 107 | 292 | 294 | 496 | 5.97e-44 | 166 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1384870 | A0A072V0W9 | 96.930 | 456 | 13 | 1 | 1 | 456 | 1 | 455 | 0.0 | 912 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0002560 | Msa1384870 | 0.808279 | 3.347881e-50 | -8.615850e-47 |
| Msa0003720 | Msa1384870 | 0.808105 | 3.647656e-50 | -8.615850e-47 |
| Msa0003890 | Msa1384870 | 0.800368 | 1.489425e-48 | -8.615850e-47 |
| Msa0007990 | Msa1384870 | 0.802041 | 6.771030e-49 | -8.615850e-47 |
| Msa0010770 | Msa1384870 | 0.802426 | 5.641873e-49 | -8.615850e-47 |
| Msa0010850 | Msa1384870 | 0.801756 | 7.746983e-49 | -8.615850e-47 |
| Msa0011960 | Msa1384870 | 0.806229 | 9.103716e-50 | -8.615850e-47 |
| Msa0014570 | Msa1384870 | 0.818102 | 2.335411e-52 | -8.615850e-47 |
| Msa0016060 | Msa1384870 | 0.807811 | 4.212604e-50 | -8.615850e-47 |
| Msa0017390 | Msa1384870 | 0.840583 | 7.966670e-58 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1384870 | MtrunA17_Chr3g0131161 | 96.930 | 456 | 13 | 1 | 1 | 456 | 1 | 455 | 0.0 | 912 |
| Msa1384870 | MtrunA17_Chr8g0356141 | 42.654 | 211 | 111 | 2 | 107 | 316 | 350 | 551 | 9.14e-45 | 166 |
| Msa1384870 | MtrunA17_Chr7g0267221 | 46.354 | 192 | 95 | 4 | 108 | 292 | 195 | 385 | 6.93e-44 | 160 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1384870 | AT5G23610.1 | 37.736 | 371 | 199 | 6 | 108 | 452 | 124 | 488 | 6.43e-77 | 249 |
| Msa1384870 | AT5G23610.2 | 37.634 | 372 | 199 | 6 | 108 | 452 | 124 | 489 | 9.17e-77 | 248 |
| Msa1384870 | AT5G51330.2 | 43.842 | 203 | 97 | 2 | 107 | 292 | 290 | 492 | 5.47e-45 | 166 |
| Msa1384870 | AT5G51330.1 | 43.842 | 203 | 97 | 2 | 107 | 292 | 294 | 496 | 6.07e-45 | 166 |
Find 184 sgRNAs with CRISPR-Local
Find 270 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGATGGAGCAGCAGCTGT+TGG | 0.548685 | tig0020683:+62158 | Msa1384870:CDS |
| AACAGTTGTAGAAGAATCTG+GGG | 0.639407 | tig0020683:-61971 | None:intergenic |
| AACCACTAAGTTCATGGAAG+AGG | 0.533655 | tig0020683:+62356 | Msa1384870:three_prime_UTR |
| AACCTCTTCCATGAACTTAG+TGG | 0.380359 | tig0020683:-62358 | None:intergenic |
| AACTGAAAGTAACATGATGG+AGG | 0.656525 | tig0020683:+61191 | Msa1384870:CDS |
| AAGAACTGACTAACAAGAAG+AGG | 0.565105 | tig0020683:+61768 | Msa1384870:CDS |
| AAGAATCAGCATCCTGACAA+GGG | 0.613306 | tig0020683:-61002 | None:intergenic |
| AAGAATCCATGATTTCAGTT+AGG | 0.487830 | tig0020683:-61345 | None:intergenic |
| AAGCATGTGGGAGGTGCTGA+AGG | 0.543073 | tig0020683:+60705 | Msa1384870:CDS |
| AAGTACAAGTTCTCATTGAA+TGG | 0.433501 | tig0020683:-62578 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AAAATGGGAGAAATTGGAAA+AGG | - | tig0020683:59552-59571 | None:intergenic | 30.0% | |
| CAAAACGCGAATTGAAAAAA+TGG | - | tig0020683:59568-59587 | None:intergenic | 30.0% | |
| CAATAACCTAAAAGCTTAGT+AGG | - | tig0020683:60129-60148 | None:intergenic | 30.0% | |
| AATCTAATGTAGGTACAAGT+CGG | + | tig0020683:60675-60694 | Msa1384870:intron | 30.0% | |
| AGTATCACCAATGTATTTAC+GGG | - | tig0020683:60785-60804 | None:intergenic | 30.0% | |
| CAGTATCACCAATGTATTTA+CGG | - | tig0020683:60786-60805 | None:intergenic | 30.0% | |
| AGTTCAGTACTTCTTCATTT+GGG | - | tig0020683:61061-61080 | None:intergenic | 30.0% | |
| AAGTTCAGTACTTCTTCATT+TGG | - | tig0020683:61062-61081 | None:intergenic | 30.0% | |
| GAAAACTGAAAGTAACATGA+TGG | + | tig0020683:61188-61207 | Msa1384870:CDS | 30.0% | |
| AAGAATCCATGATTTCAGTT+AGG | - | tig0020683:61348-61367 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0020683 | gene | 59301 | 62934 | 59301 | ID=Msa1384870;Name=Msa1384870 |
| tig0020683 | mRNA | 59301 | 62934 | 59301 | ID=Msa1384870-mRNA-1;Parent=Msa1384870;Name=Msa1384870-mRNA-1;_AED=0.07;_eAED=0.07;_QI=303|1|1|1|0.85|0.75|8|713|456 |
| tig0020683 | exon | 59301 | 59538 | 59301 | ID=Msa1384870-mRNA-1:exon:9301;Parent=Msa1384870-mRNA-1 |
| tig0020683 | exon | 60182 | 60584 | 60182 | ID=Msa1384870-mRNA-1:exon:9302;Parent=Msa1384870-mRNA-1 |
| tig0020683 | exon | 60687 | 61070 | 60687 | ID=Msa1384870-mRNA-1:exon:9303;Parent=Msa1384870-mRNA-1 |
| tig0020683 | exon | 61155 | 61212 | 61155 | ID=Msa1384870-mRNA-1:exon:9304;Parent=Msa1384870-mRNA-1 |
| tig0020683 | exon | 61298 | 61381 | 61298 | ID=Msa1384870-mRNA-1:exon:9305;Parent=Msa1384870-mRNA-1 |
| tig0020683 | exon | 61494 | 61789 | 61494 | ID=Msa1384870-mRNA-1:exon:9306;Parent=Msa1384870-mRNA-1 |
| tig0020683 | exon | 61921 | 62035 | 61921 | ID=Msa1384870-mRNA-1:exon:9307;Parent=Msa1384870-mRNA-1 |
| tig0020683 | exon | 62126 | 62934 | 62126 | ID=Msa1384870-mRNA-1:exon:9308;Parent=Msa1384870-mRNA-1 |
| tig0020683 | five_prime_UTR | 59301 | 59538 | 59301 | ID=Msa1384870-mRNA-1:five_prime_utr;Parent=Msa1384870-mRNA-1 |
| tig0020683 | five_prime_UTR | 60182 | 60246 | 60182 | ID=Msa1384870-mRNA-1:five_prime_utr;Parent=Msa1384870-mRNA-1 |
| tig0020683 | CDS | 60247 | 60584 | 60247 | ID=Msa1384870-mRNA-1:cds;Parent=Msa1384870-mRNA-1 |
| tig0020683 | CDS | 60687 | 61070 | 60687 | ID=Msa1384870-mRNA-1:cds;Parent=Msa1384870-mRNA-1 |
| tig0020683 | CDS | 61155 | 61212 | 61155 | ID=Msa1384870-mRNA-1:cds;Parent=Msa1384870-mRNA-1 |
| tig0020683 | CDS | 61298 | 61381 | 61298 | ID=Msa1384870-mRNA-1:cds;Parent=Msa1384870-mRNA-1 |
| tig0020683 | CDS | 61494 | 61789 | 61494 | ID=Msa1384870-mRNA-1:cds;Parent=Msa1384870-mRNA-1 |
| tig0020683 | CDS | 61921 | 62035 | 61921 | ID=Msa1384870-mRNA-1:cds;Parent=Msa1384870-mRNA-1 |
| tig0020683 | CDS | 62126 | 62221 | 62126 | ID=Msa1384870-mRNA-1:cds;Parent=Msa1384870-mRNA-1 |
| tig0020683 | three_prime_UTR | 62222 | 62934 | 62222 | ID=Msa1384870-mRNA-1:three_prime_utr;Parent=Msa1384870-mRNA-1 |
| Gene Sequence |
>Msa1384870 ATGGATAGGTGGGGTGTTCATCGTCAACAGGCATTCATTGGTTGGCGTGCAAGTTCTTTTCCTTCTGTTACTAGGAAGGAAGAGGACTCGGACAACGACAGAGAAGAAGTAAATGTTAAGAATGAACCAATATATTTTCCAGATAGTAAGAAAAGGAAGCGCCTCAGCCTTAGTCAGCTTAGAGAGGTGAAAGTAGAGTCTTGTGAGAAGCTTAGAGAGGTGAAAGAGGAGCCTTATGGTCAGCTTATTGAGGTGAAAGAGGAGTATGCTGGGAATCAAAGCAGTAGCAAGAATAAGAGAAAGAAGCATGACAGTAAGGATAGATGGTCAAGCGAGAGGTACAAGTCGGCTGAACAAAGCATGTGGGAGGTGCTGAAGGCAGAGGGGGCGACTTTTGAACACCCAATAACCCGACCTGTACTAAGATCAGCTGCCCGTAAATACATTGGTGATACTGGACTTTTAGACCACTTACTGAAGCACATTGACCGTAAAGTGGCACCTGGAGGGACTGATCGGTTCCGAAGATGGTTCAACCCTGACGGAATTATGGAGTATTGGTTGGAGAGGGCTGACTTGGATGACGTCCGCGAGGAGGCTGGGGTTGATGACCCCTATTGGATACCACCATCCACTGTTAGGGCCATCCGTGCCCCTTGTCAGGATGCTGATTCTTCTGCTGAATTGAAACTGCTTAAAATAGAAATGGCCCAAATGAAGAAAGATATGCAGGAGCTCATTGCCCAGAAGGAAAAGAAAACTGAAAGTAACATGATGGAGAAGACTTGCAAGGAACTTATGAAGTGGAAAGCTAAAACTGACAACCGCCTAACTGAAATCATGGATTCTTTGAAGAATTTGCAGGGCAAGTATGGTGAGTTCGCGATATGGAAAACTGAAGTGGAGCAACATCTTATGGATATAACAAATAAATTGAATGCTCTTCAAGCACCAAGAGAGTGCACCACTTTTAGTCCTCCTTCAGAAAAATGGAAAGATTGGTTAGAAAACACTAACCCAGACAATACTCAGGATGACGGATTGGCAACTTGGATAGGGAGTTCAGAACTATTTAATGTTCCACAAGAGTGTTTTCTTGAAGATCCCTACTCAGGCATGCCAATTCAGCCACTCAATGAAGAACTGACTAACAAGAAGAGTCATGTTGAGGAGCTGATACCCACAATGCAAGAGGATCAACCTAATGTCACCCCAGATTCTTCTACAACTGTTAATTCAAAGGCAGACGTTGACAACTTGTTGATAATGTTTCAGGAGATGTTTATGGATTTATTCAAATGGAAAGAAAAGATGGAGCAGCAGCTGTTGGATGTATCAAACACTGTATATGGCATGCTAGCAATGAAGTAG |
| Protein sequence |
>Msa1384870 MDRWGVHRQQAFIGWRASSFPSVTRKEEDSDNDREEVNVKNEPIYFPDSKKRKRLSLSQLREVKVESCEKLREVKEEPYGQLIEVKEEYAGNQSSSKNKRKKHDSKDRWSSERYKSAEQSMWEVLKAEGATFEHPITRPVLRSAARKYIGDTGLLDHLLKHIDRKVAPGGTDRFRRWFNPDGIMEYWLERADLDDVREEAGVDDPYWIPPSTVRAIRAPCQDADSSAELKLLKIEMAQMKKDMQELIAQKEKKTESNMMEKTCKELMKWKAKTDNRLTEIMDSLKNLQGKYGEFAIWKTEVEQHLMDITNKLNALQAPRECTTFSPPSEKWKDWLENTNPDNTQDDGLATWIGSSELFNVPQECFLEDPYSGMPIQPLNEELTNKKSHVEELIPTMQEDQPNVTPDSSTTVNSKADVDNLLIMFQEMFMDLFKWKEKMEQQLLDVSNTVYGMLAMK* |
