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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0919360 | RHN51948.1 | 54.447 | 371 | 107 | 10 | 71 | 393 | 97 | 453 | 1.72e-112 | 352 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0919360 | sp|O65472|CRK12_ARATH | 66.667 | 162 | 50 | 1 | 232 | 393 | 345 | 502 | 2.85e-68 | 230 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0919360 | MtrunA17_Chr6g0474861 | 54.447 | 371 | 107 | 10 | 71 | 393 | 97 | 453 | 1.58e-116 | 352 |
| Msa0919360 | MtrunA17_Chr6g0474871 | 50.678 | 369 | 142 | 10 | 32 | 393 | 397 | 732 | 7.95e-93 | 297 |
| Msa0919360 | MtrunA17_Chr6g0474871 | 62.150 | 214 | 38 | 1 | 20 | 190 | 146 | 359 | 8.44e-74 | 246 |
| Msa0919360 | MtrunA17_Chr6g0474871 | 40.602 | 133 | 61 | 3 | 100 | 224 | 374 | 496 | 8.22e-20 | 91.7 |
| Msa0919360 | MtrunA17_Chr6g0475091 | 88.889 | 162 | 14 | 1 | 232 | 393 | 591 | 748 | 5.10e-91 | 293 |
| Msa0919360 | MtrunA17_Chr6g0475091 | 56.723 | 238 | 48 | 2 | 22 | 215 | 159 | 385 | 1.73e-72 | 243 |
| Msa0919360 | MtrunA17_Chr6g0475091 | 37.624 | 202 | 96 | 8 | 100 | 284 | 386 | 574 | 7.56e-14 | 73.6 |
| Msa0919360 | MtrunA17_Chr6g0474901 | 70.892 | 213 | 18 | 1 | 22 | 190 | 143 | 355 | 1.19e-88 | 286 |
| Msa0919360 | MtrunA17_Chr6g0474901 | 86.420 | 162 | 18 | 1 | 232 | 393 | 576 | 733 | 3.97e-88 | 285 |
| Msa0919360 | MtrunA17_Chr6g0474901 | 36.816 | 201 | 100 | 6 | 100 | 284 | 370 | 559 | 1.48e-25 | 108 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0919360 | AT4G23200.2 | 67.284 | 162 | 49 | 1 | 232 | 393 | 345 | 502 | 1.99e-71 | 232 |
| Msa0919360 | AT4G23200.1 | 66.667 | 162 | 50 | 1 | 232 | 393 | 345 | 502 | 2.89e-69 | 230 |
| Msa0919360 | AT4G23130.3 | 65.161 | 155 | 54 | 0 | 238 | 392 | 355 | 509 | 2.70e-67 | 223 |
| Msa0919360 | AT4G23180.3 | 64.516 | 155 | 55 | 0 | 238 | 392 | 359 | 513 | 3.21e-67 | 221 |
| Msa0919360 | AT4G11530.1 | 63.095 | 168 | 60 | 1 | 226 | 393 | 353 | 518 | 1.05e-66 | 224 |
| Msa0919360 | AT4G23190.2 | 65.161 | 155 | 54 | 0 | 238 | 392 | 361 | 515 | 1.75e-66 | 221 |
| Msa0919360 | AT4G23180.2 | 64.516 | 155 | 55 | 0 | 238 | 392 | 359 | 513 | 2.06e-66 | 221 |
| Msa0919360 | AT4G23130.2 | 65.161 | 155 | 54 | 0 | 238 | 392 | 355 | 509 | 2.12e-66 | 223 |
| Msa0919360 | AT4G23130.1 | 63.975 | 161 | 56 | 1 | 232 | 392 | 347 | 505 | 2.22e-66 | 223 |
| Msa0919360 | AT4G23190.3 | 65.161 | 155 | 54 | 0 | 238 | 392 | 283 | 437 | 3.73e-66 | 221 |
Find 98 sgRNAs with CRISPR-Local
Find 463 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACTGCAGAGGAAGCAGC+AGG | 0.593985 | 6_2:-51170687 | Msa0919360:CDS |
| AAAATTCCGTACTGTTAAAG+TGG | 0.474966 | 6_2:-51170172 | Msa0919360:CDS |
| AAAGTGGAAGAAATGGTGTA+CGG | 0.607209 | 6_2:-51170156 | Msa0919360:CDS |
| AAAGTGTCTTTCACGTCCAA+AGG | 0.515827 | 6_2:-51170055 | Msa0919360:CDS |
| AAATCCGACATTTATAGTTT+TGG | 0.258466 | 6_2:-51167649 | Msa0919360:three_prime_UTR |
| AACAACAAAAGTCGTTAACT+TGG | 0.436245 | 6_2:-51168032 | Msa0919360:CDS |
| AACCAAATAGAAAGTAATCA+AGG | 0.509143 | 6_2:+51168171 | None:intergenic |
| AACTCCAAAACTATAAATGT+CGG | 0.562787 | 6_2:+51167645 | None:intergenic |
| AAGACTTCGCCTGCATTTCC+TGG | 0.359508 | 6_2:+51168969 | None:intergenic |
| AAGTGTCTTTCACGTCCAAA+GGG | 0.570691 | 6_2:-51170054 | Msa0919360:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AGTGGAAAAGAAAGAATAGT+TGG | + | chr6_2:51162767-51162786 | None:intergenic | 30.0% | |
| TATATCCTTGGTATTACATG+TGG | - | chr6_2:51162794-51162813 | Msa0919360:intron | 30.0% | |
| TCATACCTAATATTACAGCT+AGG | + | chr6_2:51163171-51163190 | None:intergenic | 30.0% | |
| ATCTTTCCTATAATTGCTCA+AGG | - | chr6_2:51163295-51163314 | Msa0919360:intron | 30.0% | |
| AAAATTCCGTACTGTTAAAG+TGG | - | chr6_2:51163392-51163411 | Msa0919360:intron | 30.0% | |
| TTTCTTCCACTTTAACAGTA+CGG | + | chr6_2:51163401-51163420 | None:intergenic | 30.0% | |
| TACTGTTAAAGTGGAAGAAA+TGG | - | chr6_2:51163401-51163420 | Msa0919360:intron | 30.0% | |
| TCAATGTGTGAAAAATGCAA+CGG | - | chr6_2:51163473-51163492 | Msa0919360:intron | 30.0% | |
| AAACTGAATGATGTACAAAC+AGG | - | chr6_2:51163741-51163760 | Msa0919360:intron | 30.0% | |
| AACTGAATGATGTACAAACA+GGG | - | chr6_2:51163742-51163761 | Msa0919360:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_2 | gene | 51162677 | 51170909 | 51162677 | ID=Msa0919360;Name=Msa0919360 |
| chr6_2 | mRNA | 51162677 | 51170909 | 51162677 | ID=Msa0919360-mRNA-1;Parent=Msa0919360;Name=Msa0919360-mRNA-1;_AED=0.23;_eAED=0.25;_QI=0|0.42|0.5|1|0.71|0.62|8|729|393 |
| chr6_2 | exon | 51162677 | 51162706 | 51162677 | ID=Msa0919360-mRNA-1:exon:7648;Parent=Msa0919360-mRNA-1 |
| chr6_2 | exon | 51166870 | 51167313 | 51166870 | ID=Msa0919360-mRNA-1:exon:7647;Parent=Msa0919360-mRNA-1 |
| chr6_2 | exon | 51167564 | 51168060 | 51167564 | ID=Msa0919360-mRNA-1:exon:7646;Parent=Msa0919360-mRNA-1 |
| chr6_2 | exon | 51168174 | 51168384 | 51168174 | ID=Msa0919360-mRNA-1:exon:7645;Parent=Msa0919360-mRNA-1 |
| chr6_2 | exon | 51168953 | 51169122 | 51168953 | ID=Msa0919360-mRNA-1:exon:7644;Parent=Msa0919360-mRNA-1 |
| chr6_2 | exon | 51170055 | 51170377 | 51170055 | ID=Msa0919360-mRNA-1:exon:7643;Parent=Msa0919360-mRNA-1 |
| chr6_2 | exon | 51170588 | 51170762 | 51170588 | ID=Msa0919360-mRNA-1:exon:7642;Parent=Msa0919360-mRNA-1 |
| chr6_2 | exon | 51170849 | 51170909 | 51170849 | ID=Msa0919360-mRNA-1:exon:7641;Parent=Msa0919360-mRNA-1 |
| chr6_2 | CDS | 51170849 | 51170909 | 51170849 | ID=Msa0919360-mRNA-1:cds;Parent=Msa0919360-mRNA-1 |
| chr6_2 | CDS | 51170588 | 51170762 | 51170588 | ID=Msa0919360-mRNA-1:cds;Parent=Msa0919360-mRNA-1 |
| chr6_2 | CDS | 51170055 | 51170377 | 51170055 | ID=Msa0919360-mRNA-1:cds;Parent=Msa0919360-mRNA-1 |
| chr6_2 | CDS | 51168953 | 51169122 | 51168953 | ID=Msa0919360-mRNA-1:cds;Parent=Msa0919360-mRNA-1 |
| chr6_2 | CDS | 51168174 | 51168384 | 51168174 | ID=Msa0919360-mRNA-1:cds;Parent=Msa0919360-mRNA-1 |
| chr6_2 | CDS | 51167819 | 51168060 | 51167819 | ID=Msa0919360-mRNA-1:cds;Parent=Msa0919360-mRNA-1 |
| chr6_2 | three_prime_UTR | 51167564 | 51167818 | 51167564 | ID=Msa0919360-mRNA-1:three_prime_utr;Parent=Msa0919360-mRNA-1 |
| chr6_2 | three_prime_UTR | 51166870 | 51167313 | 51166870 | ID=Msa0919360-mRNA-1:three_prime_utr;Parent=Msa0919360-mRNA-1 |
| chr6_2 | three_prime_UTR | 51162677 | 51162706 | 51162677 | ID=Msa0919360-mRNA-1:three_prime_utr;Parent=Msa0919360-mRNA-1 |
| Gene Sequence |
>Msa0919360 ATGCAACTCAAAAACTGTCCTCAGACTCGGATTGCTCTTTGTCCAAAGAAGCTATCATTTGGCAACGTATCTAACACAACAAGCTTCAATGCTTTATTGTCTTCGACTATGCGTAAAACTGCAGAGGAAGCAGCAGGTTCACTTACTGCTGACAACAACAAGAAGTTTGCCACAAACGAAGCACGGATTTCTGAATCTCAGACCCTTTACTGTCTAGCTCAGTGCACGCCGGACTTGTCTATTAATGCTCCTTCACCAAATGAGCTTGTTCCTCAAACAAATGATTCAAATCAAGATTCAAGATTTTCACAAGATCCAATTTATCTTTCCTATAATTGCTCAAGGAACAACAGTACAATCACTAACAAAAGCTTCAAATTACTTCTCTCTTATCTGTCCTCCAACGCCACAAGTGGCGAAAAATTCCGTACTGTTAAAGTGGAAGAAATGGTGTACGGCCTCTTCATGTGTCGAGGTGACCTTCCCGTTCGCCTCTGTGGTCAATGTGTGAAAAATGCAACGGATCAAATATACTCAAAGTGTCTTTCACGTCCAAAGGAAATTCCATGGTCAAATTTGGGTAGTGTCGGGGGCAGAATTTTGTACCCTAGCTGCAATTTGAGGTTTGAATTGTTCCAATTTTACATGGAGGGTGACGAAGCTCAGCCGCCTGGGAGTCCTTCTCCATTACCAGGAAATGCAGGCGAAGTCTTTGCTCCAATTTTACAGGGTATCCTTTTTGACGGACGAGAAGTGGCCATAAAAAGGCTTTCAAAAGTTTCTAAGCAAGGTGTAGAGGAGTTCAAGAATGAAGTTTTATTGATAGCCAAGCTTCAACATAGAAACCTAGTGGCTTTTATTGGTTTTTGCCTTGAAGAACATGAGAAAATACTTATTTATGAATTTGTGCCCAACAAAAGCCTTGATTACTTTCTATTTGATTCTCAACAACAAAAGTCGTTAACTTGGGTTGAACGCTTCAACATCATAGGAGGAATTGTTCGAGGGATTCTTTATTTGCATGAAAATTCTCGACTCAAAGTTATACATCGGGATCTCAAACCTAGCAATATTCTTCTAGACAAAAATATGATTCCTAAAATTTCAGATTTTGGTTTGGCTCGAATCGTTGAAATAAGTCAAGATGAGGGAAACACAAATAGAATTGTTGGAACATTGTAA |
| Protein sequence |
>Msa0919360 MQLKNCPQTRIALCPKKLSFGNVSNTTSFNALLSSTMRKTAEEAAGSLTADNNKKFATNEARISESQTLYCLAQCTPDLSINAPSPNELVPQTNDSNQDSRFSQDPIYLSYNCSRNNSTITNKSFKLLLSYLSSNATSGEKFRTVKVEEMVYGLFMCRGDLPVRLCGQCVKNATDQIYSKCLSRPKEIPWSNLGSVGGRILYPSCNLRFELFQFYMEGDEAQPPGSPSPLPGNAGEVFAPILQGILFDGREVAIKRLSKVSKQGVEEFKNEVLLIAKLQHRNLVAFIGFCLEEHEKILIYEFVPNKSLDYFLFDSQQQKSLTWVERFNIIGGIVRGILYLHENSRLKVIHRDLKPSNILLDKNMIPKISDFGLARIVEISQDEGNTNRIVGTL* |
