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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0383570 | XP_024634338.1 | 96.286 | 350 | 10 | 1 | 1 | 347 | 476 | 825 | 0.0 | 695 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0383570 | sp|Q8W593|LGUC_ARATH | 66.571 | 347 | 104 | 4 | 9 | 347 | 8 | 350 | 9.85e-165 | 466 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0383570 | A0A072V303 | 96.286 | 350 | 10 | 1 | 1 | 347 | 472 | 821 | 0.0 | 695 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000180 | Msa0383570 | 0.810200 | 1.297143e-50 | -8.615850e-47 |
| Msa0000220 | Msa0383570 | 0.852173 | 5.490259e-61 | -8.615850e-47 |
| Msa0000780 | Msa0383570 | 0.806560 | 7.752508e-50 | -8.615850e-47 |
| Msa0001460 | Msa0383570 | 0.813267 | 2.791383e-51 | -8.615850e-47 |
| Msa0001510 | Msa0383570 | 0.804366 | 2.236062e-49 | -8.615850e-47 |
| Msa0001540 | Msa0383570 | 0.852225 | 5.306668e-61 | -8.615850e-47 |
| Msa0002060 | Msa0383570 | 0.843758 | 1.150423e-58 | -8.615850e-47 |
| Msa0007160 | Msa0383570 | 0.808723 | 2.692474e-50 | -8.615850e-47 |
| Msa0007170 | Msa0383570 | 0.803801 | 2.931100e-49 | -8.615850e-47 |
| Msa0008250 | Msa0383570 | 0.816486 | 5.395425e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0383570 | MtrunA17_Chr3g0140091 | 96.286 | 350 | 10 | 1 | 1 | 347 | 1 | 350 | 0.0 | 691 |
| Msa0383570 | MtrunA17_Chr4g0019621 | 93.927 | 247 | 10 | 1 | 101 | 347 | 7 | 248 | 5.22e-169 | 470 |
| Msa0383570 | MtrunA17_Chr4g0019621 | 47.500 | 120 | 58 | 1 | 89 | 208 | 125 | 239 | 8.71e-28 | 108 |
| Msa0383570 | MtrunA17_Chr8g0390251 | 65.706 | 347 | 100 | 4 | 15 | 347 | 6 | 347 | 1.34e-164 | 463 |
| Msa0383570 | MtrunA17_Chr6g0486631 | 63.582 | 335 | 109 | 4 | 23 | 347 | 17 | 348 | 1.65e-151 | 430 |
| Msa0383570 | MtrunA17_Chr2g0288571 | 66.431 | 283 | 91 | 1 | 69 | 347 | 5 | 287 | 2.82e-138 | 394 |
| Msa0383570 | MtrunA17_Chr4g0075021 | 61.957 | 276 | 101 | 1 | 76 | 347 | 7 | 282 | 5.67e-129 | 370 |
| Msa0383570 | MtrunA17_Chr4g0075001 | 60.000 | 250 | 96 | 1 | 102 | 347 | 16 | 265 | 1.05e-110 | 323 |
| Msa0383570 | MtrunA17_Chr4g0075001 | 41.085 | 129 | 72 | 1 | 86 | 210 | 130 | 258 | 1.75e-26 | 105 |
| Msa0383570 | MtrunA17_Chr4g0028391 | 30.263 | 152 | 71 | 6 | 88 | 210 | 79 | 224 | 2.00e-13 | 68.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0383570 | AT1G67280.1 | 66.571 | 347 | 104 | 4 | 9 | 347 | 8 | 350 | 1.00e-165 | 466 |
| Msa0383570 | AT1G67280.2 | 78.544 | 261 | 56 | 0 | 87 | 347 | 2 | 262 | 1.11e-152 | 430 |
| Msa0383570 | AT1G11840.6 | 68.421 | 285 | 85 | 2 | 67 | 347 | 39 | 322 | 2.51e-139 | 398 |
| Msa0383570 | AT1G11840.4 | 69.424 | 278 | 81 | 1 | 74 | 347 | 6 | 283 | 6.34e-139 | 395 |
| Msa0383570 | AT1G11840.1 | 69.424 | 278 | 81 | 1 | 74 | 347 | 6 | 283 | 6.34e-139 | 395 |
| Msa0383570 | AT1G11840.3 | 69.424 | 278 | 81 | 1 | 74 | 347 | 6 | 283 | 6.34e-139 | 395 |
| Msa0383570 | AT1G11840.2 | 69.424 | 278 | 81 | 1 | 74 | 347 | 6 | 283 | 6.34e-139 | 395 |
| Msa0383570 | AT1G11840.5 | 68.203 | 217 | 69 | 0 | 74 | 290 | 6 | 222 | 4.59e-107 | 313 |
| Msa0383570 | AT1G11840.5 | 48.387 | 124 | 64 | 0 | 216 | 339 | 18 | 141 | 1.44e-33 | 124 |
| Msa0383570 | AT1G08110.3 | 28.767 | 146 | 77 | 4 | 88 | 208 | 30 | 173 | 5.58e-12 | 64.3 |
Find 142 sgRNAs with CRISPR-Local
Find 209 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATGGCAGATATAGTCAC+CGG | 0.606175 | 3_1:+86476500 | Msa0383560:CDS |
| AACTAAATGGCAGCATTGCG+AGG | 0.578223 | 3_1:+86475887 | Msa0383560:intron |
| ACAATCTTGGTGTTGATACC+AGG | 0.558211 | 3_1:+86477088 | None:intergenic |
| ACACCCGACCAAACATGTCT+TGG | 0.515413 | 3_1:+86479201 | None:intergenic |
| ACAGTAGCCAAGTTGGGATA+TGG | 0.468535 | 3_1:-86477404 | Msa0383570:CDS |
| ACGTGGCACTATAATAACGT+AGG | 0.702044 | 3_1:-86479228 | Msa0383570:five_prime_UTR |
| ACTAACTATGACAAAGGAAA+TGG | 0.452864 | 3_1:-86477332 | Msa0383570:CDS |
| ACTAACTGCAGCATTAACAT+AGG | 0.596084 | 3_1:-86479175 | Msa0383570:five_prime_UTR |
| ACTGTAAAACTGGAATCTTC+AGG | 0.439492 | 3_1:+86478341 | None:intergenic |
| AGAACAGGACCATTAGCTTC+AGG | 0.460964 | 3_1:+86477380 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TAAACACTTGTGAGTTTGAT+TGG | + | chr3_1:86476508-86476527 | Msa0383560:CDS | 30.0% | |
| GTTAAGAAAACGTGATATAC+CGG | - | chr3_1:86476611-86476630 | Msa0383570:three_prime_UTR | 30.0% | |
| GCATTTGAATATTTGTCTTC+CGG | + | chr3_1:86476633-86476652 | Msa0383560:CDS | 30.0% | |
| AGTAAGTTCAACTGTAAAAC+TGG | + | chr3_1:86476682-86476701 | Msa0383560:CDS | 30.0% | |
| CTTTACAATATCTACTGTCT+TGG | + | chr3_1:86477107-86477126 | None:intergenic | 30.0% | |
| CAAGACAGTAGATATTGTAA+AGG | - | chr3_1:86477105-86477124 | Msa0383570:CDS | 30.0% | |
| TAGATATTGTAAAGGCGAAA+GGG | - | chr3_1:86477113-86477132 | Msa0383570:CDS | 30.0% | |
| CTTGTCGTTGTTAATTTCAA+AGG | - | chr3_1:86477398-86477417 | Msa0383570:CDS | 30.0% | |
| TTGTTAATTTCAAAGGCTGT+TGG | - | chr3_1:86477405-86477424 | Msa0383570:CDS | 30.0% | |
| TCAATCAAAATAGTAATCCC+AGG | + | chr3_1:86477518-86477537 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 86475778 | 86479254 | 86475778 | ID=Msa0383570;Name=Msa0383570 |
| chr3_1 | mRNA | 86475778 | 86479254 | 86475778 | ID=Msa0383570-mRNA-1;Parent=Msa0383570;Name=Msa0383570-mRNA-1;_AED=0.24;_eAED=0.24;_QI=121|1|1|1|0.88|0.8|10|933|347 |
| chr3_1 | exon | 86475778 | 86476272 | 86475778 | ID=Msa0383570-mRNA-1:exon:22892;Parent=Msa0383570-mRNA-1 |
| chr3_1 | exon | 86476456 | 86476935 | 86476456 | ID=Msa0383570-mRNA-1:exon:22891;Parent=Msa0383570-mRNA-1 |
| chr3_1 | exon | 86477057 | 86477197 | 86477057 | ID=Msa0383570-mRNA-1:exon:22890;Parent=Msa0383570-mRNA-1 |
| chr3_1 | exon | 86477322 | 86477429 | 86477322 | ID=Msa0383570-mRNA-1:exon:22889;Parent=Msa0383570-mRNA-1 |
| chr3_1 | exon | 86477565 | 86477612 | 86477565 | ID=Msa0383570-mRNA-1:exon:22888;Parent=Msa0383570-mRNA-1 |
| chr3_1 | exon | 86477720 | 86477932 | 86477720 | ID=Msa0383570-mRNA-1:exon:22887;Parent=Msa0383570-mRNA-1 |
| chr3_1 | exon | 86478137 | 86478201 | 86478137 | ID=Msa0383570-mRNA-1:exon:22886;Parent=Msa0383570-mRNA-1 |
| chr3_1 | exon | 86478327 | 86478451 | 86478327 | ID=Msa0383570-mRNA-1:exon:22885;Parent=Msa0383570-mRNA-1 |
| chr3_1 | exon | 86478697 | 86478874 | 86478697 | ID=Msa0383570-mRNA-1:exon:22884;Parent=Msa0383570-mRNA-1 |
| chr3_1 | exon | 86479010 | 86479254 | 86479010 | ID=Msa0383570-mRNA-1:exon:22883;Parent=Msa0383570-mRNA-1 |
| chr3_1 | five_prime_UTR | 86479134 | 86479254 | 86479134 | ID=Msa0383570-mRNA-1:five_prime_utr;Parent=Msa0383570-mRNA-1 |
| chr3_1 | CDS | 86479010 | 86479133 | 86479010 | ID=Msa0383570-mRNA-1:cds;Parent=Msa0383570-mRNA-1 |
| chr3_1 | CDS | 86478697 | 86478874 | 86478697 | ID=Msa0383570-mRNA-1:cds;Parent=Msa0383570-mRNA-1 |
| chr3_1 | CDS | 86478327 | 86478451 | 86478327 | ID=Msa0383570-mRNA-1:cds;Parent=Msa0383570-mRNA-1 |
| chr3_1 | CDS | 86478137 | 86478201 | 86478137 | ID=Msa0383570-mRNA-1:cds;Parent=Msa0383570-mRNA-1 |
| chr3_1 | CDS | 86477720 | 86477932 | 86477720 | ID=Msa0383570-mRNA-1:cds;Parent=Msa0383570-mRNA-1 |
| chr3_1 | CDS | 86477565 | 86477612 | 86477565 | ID=Msa0383570-mRNA-1:cds;Parent=Msa0383570-mRNA-1 |
| chr3_1 | CDS | 86477322 | 86477429 | 86477322 | ID=Msa0383570-mRNA-1:cds;Parent=Msa0383570-mRNA-1 |
| chr3_1 | CDS | 86477057 | 86477197 | 86477057 | ID=Msa0383570-mRNA-1:cds;Parent=Msa0383570-mRNA-1 |
| chr3_1 | CDS | 86476894 | 86476935 | 86476894 | ID=Msa0383570-mRNA-1:cds;Parent=Msa0383570-mRNA-1 |
| chr3_1 | three_prime_UTR | 86476456 | 86476893 | 86476456 | ID=Msa0383570-mRNA-1:three_prime_utr;Parent=Msa0383570-mRNA-1 |
| chr3_1 | three_prime_UTR | 86475778 | 86476272 | 86475778 | ID=Msa0383570-mRNA-1:three_prime_utr;Parent=Msa0383570-mRNA-1 |
| Gene Sequence |
>Msa0383570 ATGATCTCATCCTTAATGTTACCATCTGCTACAACATTAAGACCTTGTTGTAGTTGTAGCATCACTCCATCGTCATCTTCACGAAGAATTGCTCTCTTTCATCTTCTCACCACTGGTGGTATTGCTCTACCACAATCCCAATTACTCGGTGGAAAAGGATCAGAATTGTTCAAATTAGCAAAGGCTAATGCTGCAGTAAATCTTGCCCAACCAGACCAAAACTTGGTTAACTGGGTCCAAAATGATAATAGAAGATTTCTACATGTTGTATACAAGGTTGGAGATTTGGACAAGACTATAAAATTCTACACTGAATGCCTTGGCATGAAGCTGTTAAGAAAACGTGATATACCGGAAGACAAATATTCAAATGCTTTTCTTGGATACGGGCCTGAAGATTCCAGTTTTACAGTTGAACTTACTTATAATTATGGAGTGGATAACTATGACATTGGAACTGGTTTTGGTCATTTTGGTATTATAGCTGAAGATGTTTCCAAGACAGTAGATATTGTAAAGGCGAAAGGGGGAAAGGTTACAAGAGAACCAGGGTCTGTCAAAGGTAGCTCTATAGTAACTGCTTCCGTTGAAGATCCTAGTGGTTATAGGTTTGAGCTTTTGGAGAAAAGACCTACTCGCGAACCCTTATGCAAAGTGATGCTTCGAGTAGGCGACCATGATCGTGTCATAGCCTTCTATGAAAAAGCTGTTGGCATGAAACTTCTCCACAAGATAGACAACCCTGAGGAAAAGTACACAGTAGCCAAGTTGGGATATGGTCCTGAAGCTAATGGTCCTGTTCTAGAACTGACGTATAACTACGGCGTCACTAACTATGACAAAGGAAATGGCTATGCACAGATTGCTATAGGCACGGATGATGTCTATAAGACTGCAGAAGCAATCAAATCATGTGGAGCGAAGATTATCCGTGAACCTGGACCCTTACCTGGTATCAACACCAAGATTGTTGTTTGCTTAGACCCCGATGGTTGGAAATTGGTATTTGTTGATAATGTTGATTTTCTGAAGGAACTGGAGTGA |
| Protein sequence |
>Msa0383570 MISSLMLPSATTLRPCCSCSITPSSSSRRIALFHLLTTGGIALPQSQLLGGKGSELFKLAKANAAVNLAQPDQNLVNWVQNDNRRFLHVVYKVGDLDKTIKFYTECLGMKLLRKRDIPEDKYSNAFLGYGPEDSSFTVELTYNYGVDNYDIGTGFGHFGIIAEDVSKTVDIVKAKGGKVTREPGSVKGSSIVTASVEDPSGYRFELLEKRPTREPLCKVMLRVGDHDRVIAFYEKAVGMKLLHKIDNPEEKYTVAKLGYGPEANGPVLELTYNYGVTNYDKGNGYAQIAIGTDDVYKTAEAIKSCGAKIIREPGPLPGINTKIVVCLDPDGWKLVFVDNVDFLKELE* |
