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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0560300 | XP_003608449.2 | 88.382 | 482 | 13 | 1 | 1 | 439 | 13 | 494 | 0.0 | 871 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0560300 | sp|F8WKW1|UGT2_GARJA | 53.617 | 470 | 177 | 3 | 3 | 432 | 7 | 475 | 0.0 | 518 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0560300 | A0A396ID35 | 88.382 | 482 | 13 | 1 | 1 | 439 | 13 | 494 | 0.0 | 871 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0236940 | Msa0560300 | 0.803065 | 4.163720e-49 | -8.615850e-47 |
| Msa0560300 | Msa0638950 | 0.863660 | 2.123753e-64 | -8.615850e-47 |
| Msa0560300 | Msa0968360 | 0.800523 | 1.384640e-48 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0560300 | MtrunA17_Chr4g0050341 | 88.382 | 482 | 13 | 1 | 1 | 439 | 13 | 494 | 0.0 | 871 |
| Msa0560300 | MtrunA17_Chr5g0426431 | 51.392 | 467 | 182 | 6 | 7 | 432 | 12 | 474 | 1.12e-166 | 477 |
| Msa0560300 | MtrunA17_Chr3g0092641 | 50.321 | 467 | 187 | 6 | 6 | 431 | 11 | 473 | 4.85e-163 | 468 |
| Msa0560300 | MtrunA17_Chr3g0118671 | 47.558 | 471 | 202 | 4 | 7 | 435 | 6 | 473 | 4.17e-160 | 460 |
| Msa0560300 | MtrunA17_Chr6g0454191 | 49.682 | 471 | 193 | 4 | 5 | 432 | 8 | 477 | 1.53e-159 | 459 |
| Msa0560300 | MtrunA17_Chr3g0118771 | 47.992 | 473 | 201 | 4 | 5 | 435 | 19 | 488 | 6.69e-158 | 455 |
| Msa0560300 | MtrunA17_Chr6g0454341 | 47.872 | 470 | 200 | 4 | 5 | 432 | 8 | 474 | 4.98e-157 | 452 |
| Msa0560300 | MtrunA17_Chr3g0078841 | 46.444 | 478 | 211 | 4 | 4 | 439 | 7 | 481 | 7.18e-156 | 450 |
| Msa0560300 | MtrunA17_Chr8g0359821 | 49.145 | 468 | 197 | 3 | 5 | 432 | 8 | 474 | 1.46e-155 | 449 |
| Msa0560300 | MtrunA17_Chr3g0118691 | 45.798 | 476 | 215 | 2 | 5 | 439 | 13 | 486 | 4.85e-155 | 448 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0560300 | AT1G22380.1 | 49.266 | 477 | 197 | 4 | 5 | 439 | 11 | 484 | 6.56e-164 | 471 |
| Msa0560300 | AT1G22400.1 | 48.734 | 474 | 197 | 5 | 5 | 435 | 11 | 481 | 6.34e-163 | 468 |
| Msa0560300 | AT1G22360.1 | 49.049 | 473 | 196 | 4 | 5 | 435 | 8 | 477 | 8.60e-162 | 465 |
| Msa0560300 | AT1G22340.1 | 47.689 | 476 | 205 | 3 | 5 | 438 | 11 | 484 | 1.01e-158 | 457 |
| Msa0560300 | AT1G22370.2 | 50.106 | 473 | 186 | 5 | 5 | 435 | 11 | 475 | 5.51e-157 | 453 |
| Msa0560300 | AT1G22360.2 | 47.569 | 473 | 191 | 5 | 5 | 435 | 8 | 465 | 1.82e-152 | 441 |
| Msa0560300 | AT1G78270.1 | 47.046 | 474 | 204 | 6 | 5 | 435 | 11 | 480 | 3.65e-150 | 436 |
| Msa0560300 | AT1G22370.1 | 48.845 | 303 | 112 | 3 | 175 | 435 | 4 | 305 | 1.60e-86 | 267 |
| Msa0560300 | AT3G11340.1 | 32.762 | 467 | 245 | 13 | 4 | 432 | 6 | 441 | 6.93e-83 | 262 |
| Msa0560300 | AT3G46660.1 | 35.021 | 474 | 235 | 12 | 2 | 432 | 9 | 452 | 1.11e-81 | 259 |
Find 99 sgRNAs with CRISPR-Local
Find 261 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATCTGGAAGGCCCTTTA+AGG | 0.186175 | 4_1:+59590445 | None:intergenic |
| AAATAAATGGTACCTTTAAG+TGG | 0.441231 | 4_1:+59590116 | None:intergenic |
| AACATTGGAAAGCATTTGTG+AGG | 0.567223 | 4_1:-59586867 | Msa0560300:CDS |
| AACTTATGAAGGGAGAAAAG+GGG | 0.641004 | 4_1:-59586712 | Msa0560300:CDS |
| AAGACCTTCCCACTTTCTTT+AGG | 0.305737 | 4_1:-59587438 | Msa0560300:CDS |
| AAGATGTTAACTGCATGAAT+TGG | 0.478731 | 4_1:-59587177 | Msa0560300:CDS |
| AATGAAATCAACCCACCAAT+AGG | 0.446745 | 4_1:+59590341 | None:intergenic |
| ACAATGCAATGAAAGCAAAA+GGG | 0.615271 | 4_1:-59587366 | Msa0560300:CDS |
| ACAATTTCTTATGGGTCATT+AGG | 0.359882 | 4_1:-59587045 | Msa0560300:CDS |
| ACATTGGAAAGCATTTGTGA+GGG | 0.650032 | 4_1:-59586866 | Msa0560300:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GATCAAAATTGAATTGTGTG+TGG | + | chr4_1:59586711-59586730 | None:intergenic | 30.0% | |
| AGAAAATCAACGTGGAATAA+TGG | - | chr4_1:59586813-59586832 | Msa0560300:CDS | 30.0% | |
| GGAGTATATAACATAAACTC+AGG | + | chr4_1:59587006-59587025 | None:intergenic | 30.0% | |
| CTCATAGATATCCATATAAG+TGG | + | chr4_1:59587481-59587500 | None:intergenic | 30.0% | |
| AAACATGTGTATCATGCTAT+TGG | + | chr4_1:59587506-59587525 | None:intergenic | 30.0% | |
| CACATTGCTTCAATATAACT+CGG | + | chr4_1:59587766-59587785 | None:intergenic | 30.0% | |
| AGTTATATTGAAGCAATGTG+AGG | - | chr4_1:59587766-59587785 | Msa0560300:intron | 30.0% | |
| GTGCATAGTAATATGAAGTT+CGG | + | chr4_1:59588287-59588306 | None:intergenic | 30.0% | |
| TTACTATGTGCTAACTAACT+CGG | + | chr4_1:59588574-59588593 | None:intergenic | 30.0% | |
| ACTATCCACGCAAAAAAAAA+AGG | + | chr4_1:59588662-59588681 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 59586592 | 59590633 | 59586592 | ID=Msa0560300;Name=Msa0560300 |
| chr4_1 | mRNA | 59586592 | 59590633 | 59586592 | ID=Msa0560300-mRNA-1;Parent=Msa0560300;Name=Msa0560300-mRNA-1;_AED=0.06;_eAED=0.06;_QI=0|0|0|1|1|1|3|0|439 |
| chr4_1 | exon | 59590129 | 59590633 | 59590129 | ID=Msa0560300-mRNA-1:exon:18462;Parent=Msa0560300-mRNA-1 |
| chr4_1 | exon | 59587330 | 59587535 | 59587330 | ID=Msa0560300-mRNA-1:exon:18461;Parent=Msa0560300-mRNA-1 |
| chr4_1 | exon | 59586592 | 59587200 | 59586592 | ID=Msa0560300-mRNA-1:exon:18460;Parent=Msa0560300-mRNA-1 |
| chr4_1 | CDS | 59590129 | 59590633 | 59590129 | ID=Msa0560300-mRNA-1:cds;Parent=Msa0560300-mRNA-1 |
| chr4_1 | CDS | 59587330 | 59587535 | 59587330 | ID=Msa0560300-mRNA-1:cds;Parent=Msa0560300-mRNA-1 |
| chr4_1 | CDS | 59586592 | 59587200 | 59586592 | ID=Msa0560300-mRNA-1:cds;Parent=Msa0560300-mRNA-1 |
| Gene Sequence |
>Msa0560300 ATGGAACCATCAAGACCCCATGTGGTTTGTGTTCCACTCCCAGCACAAGGTCACATAAACCCAATGCTAAAACTAGCAAAACTCCTTCATCATAGTGGCTTTTTCATCACCTTTGTCCACACACAATTCAATTTTGATCGTTTGTTAGAATCTAGTGGCCAAAATTCCTTAAAGGGCCTTCCAGATTTTCGGTTTGAGACCATATCTGATGGTTTGCCACCAGAAAATCAACGTGGAATAATGGACCTACCAGATTTGTGCAATGCAATGCCTATTGGTGGGTTGATTTCATTCAGAAATCTTATAGCAAAGCTTGTTTCTTCAGAAAATGAAGATGTGCCTCCTGTTACATGCATAGTTTCTGATGGTGTAATGAATTTTACTTTGAAAGTTGCACAAGAATTCAATATTCCTGAGTTTATGTTATATACTCCTAGTGGATGTGGTATGTTGGGCTATCTTAACTTTGATGAGCTTCAGAAAAGAGGCTATTTTCCACTTAAAGATGAGAAGAATGTGTGTGATGGACATCTTGAAACTGAAGTTGATTGGATACCAGCAATGAGAGGAGTTAAACTGAAAGACCTTCCCACTTTCTTTAGGACTACAAATTCTAATGATACAATGTTCAATTACAACAGAGAATCAGTGGACAATGCAATGAAAGCAAAAGGGATCATCCTTAACACCTTCCAAGAATTAGAGCAAGAGGAAGATGTTAACTGCATGAATTGGTTGGATAAAAAAGACAAAGGTTCAGTGGTTTATGTGAATTTTGGGAGCTTAGTGATTATGACTACCAAGCAATTAAGAGAGTTTGCTTGGGGATTAGCTAATAGCAAATACAATTTCTTATGGGTCATTAGGCCTAATCTTGTGGATTGTGGAGATGAGGTGATATCAAATGATGAATTTTTGAAAGAAATTGAAAATAGAGGGTTAATTTTGGGGTGGTCCCCACAAGAGAAAGTTCTAAGTCATTCGTCTATTGGAGGCTTTTTAACTCATTGTGGATGGAACTCAACATTGGAAAGCATTTGTGAGGGTGTGCCAATGGCTTGCTGGCCTTTTTTTGCTGAACAACAAACCAATTGTTTTTATGCATGTAATAGATGGGGGGTTGGAATAGAAATTGAGAGTGATGTTAGTAGAGAGCAAGTTGAAGGGTTAGTGAAGGAACTTATGAAGGGAGAAAAGGGGAAAGAAATGAGGAAAAAGTGTTTGGAGTTGAAGCGTAAGGCTGAGGCTGCTACATCAATTGGAGGGTCTTCTTATAATAACTACAATAGTTTGGTTTTGAAATTGAAATTTGAAAAGTAG |
| Protein sequence |
>Msa0560300 MEPSRPHVVCVPLPAQGHINPMLKLAKLLHHSGFFITFVHTQFNFDRLLESSGQNSLKGLPDFRFETISDGLPPENQRGIMDLPDLCNAMPIGGLISFRNLIAKLVSSENEDVPPVTCIVSDGVMNFTLKVAQEFNIPEFMLYTPSGCGMLGYLNFDELQKRGYFPLKDEKNVCDGHLETEVDWIPAMRGVKLKDLPTFFRTTNSNDTMFNYNRESVDNAMKAKGIILNTFQELEQEEDVNCMNWLDKKDKGSVVYVNFGSLVIMTTKQLREFAWGLANSKYNFLWVIRPNLVDCGDEVISNDEFLKEIENRGLILGWSPQEKVLSHSSIGGFLTHCGWNSTLESICEGVPMACWPFFAEQQTNCFYACNRWGVGIEIESDVSREQVEGLVKELMKGEKGKEMRKKCLELKRKAEAATSIGGSSYNNYNSLVLKLKFEK* |
