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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0880047515.01.T03 | XP_003610195.1 | 89.13 | 138 | 10 | 3 | 1 | 136 | 39 | 173 | 1.93E-71 | 222 |
| MsG0880047515.01.T01 | XP_003610195.1 | 90.909 | 176 | 11 | 3 | 1 | 174 | 1 | 173 | 1.34E-102 | 302 |
| MsG0880047515.01.T02 | XP_003610195.1 | 90.533 | 169 | 11 | 3 | 1 | 167 | 8 | 173 | 1.02E-96 | 287 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0880047515.01.T01 | Q9FHH5 | 53.521 | 142 | 47 | 2 | 21 | 160 | 24 | 148 | 3.69E-40 | 136 |
| MsG0880047515.01.T02 | Q9FHH5 | 53.521 | 142 | 47 | 2 | 14 | 153 | 24 | 148 | 2.38E-40 | 136 |
| MsG0880047515.01.T03 | Q9FHH5 | 48.8 | 125 | 43 | 4 | 1 | 122 | 42 | 148 | 1.85E-24 | 94.7 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0880047515.01.T01 | G7JD54 | 90.909 | 176 | 11 | 3 | 1 | 174 | 1 | 173 | 6.39e-103 | 302 |
| MsG0880047515.01.T02 | G7JD54 | 90.533 | 169 | 11 | 3 | 1 | 167 | 8 | 173 | 4.88e-97 | 287 |
| MsG0880047515.01.T03 | G7JD54 | 89.130 | 138 | 10 | 3 | 1 | 136 | 39 | 173 | 9.21e-72 | 222 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsG0880041883.01 | MsG0880047515.01 | 0.818355 | 2.046784e-52 | 1.528702e-49 |
| MsG0480021237.01 | MsG0880047515.01 | 0.800804 | 1.213863e-48 | 5.704649e-46 |
| MsG0580024035.01 | MsG0880047515.01 | 0.826137 | 3.200037e-54 | 2.975425e-51 |
| MsG0380016348.01 | MsG0880047515.01 | 0.839315 | 1.705468e-57 | 2.346328e-54 |
| MsG0280007071.01 | MsG0880047515.01 | 0.809042 | 2.300627e-50 | 1.336550e-47 |
| MsG0680035777.01 | MsG0880047515.01 | 0.805134 | 1.545736e-49 | 8.114246e-47 |
PPI
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0880047515.01.T03 | MTR_4g129020 | 89.130 | 138 | 10 | 3 | 1 | 136 | 39 | 173 | 2.33e-75 | 222 |
| MsG0880047515.01.T03 | MTR_3g105690 | 55.696 | 79 | 33 | 1 | 1 | 77 | 42 | 120 | 3.51e-19 | 79.0 |
| MsG0880047515.01.T03 | MTR_3g105690 | 50.562 | 89 | 42 | 1 | 1 | 87 | 42 | 130 | 5.04e-19 | 78.6 |
| MsG0880047515.01.T01 | MTR_4g129020 | 90.909 | 176 | 11 | 3 | 1 | 174 | 1 | 173 | 1.62e-106 | 302 |
| MsG0880047515.01.T01 | MTR_3g105690 | 55.357 | 112 | 48 | 1 | 16 | 125 | 19 | 130 | 5.26e-34 | 118 |
| MsG0880047515.01.T01 | MTR_3g105690 | 55.357 | 112 | 48 | 1 | 16 | 125 | 19 | 130 | 6.41e-34 | 118 |
| MsG0880047515.01.T01 | MTR_1g013430 | 56.701 | 97 | 39 | 2 | 16 | 112 | 16 | 109 | 3.81e-23 | 89.7 |
| MsG0880047515.01.T01 | MTR_1g013410 | 55.102 | 98 | 39 | 3 | 16 | 112 | 16 | 109 | 5.40e-23 | 89.4 |
| MsG0880047515.01.T01 | MTR_7g018090 | 46.341 | 82 | 39 | 2 | 27 | 108 | 28 | 104 | 4.38e-18 | 75.9 |
| MsG0880047515.01.T01 | MTR_0542s0020 | 43.333 | 90 | 46 | 1 | 25 | 114 | 23 | 107 | 5.77e-18 | 76.3 |
| MsG0880047515.01.T01 | MTR_6g016480 | 47.191 | 89 | 39 | 1 | 27 | 115 | 14 | 94 | 1.90e-16 | 71.2 |
| MsG0880047515.01.T02 | MTR_4g129020 | 90.533 | 169 | 11 | 3 | 1 | 167 | 8 | 173 | 1.24e-100 | 287 |
| MsG0880047515.01.T02 | MTR_3g105690 | 55.357 | 112 | 48 | 1 | 9 | 118 | 19 | 130 | 4.87e-34 | 118 |
| MsG0880047515.01.T02 | MTR_3g105690 | 55.357 | 112 | 48 | 1 | 9 | 118 | 19 | 130 | 4.96e-34 | 118 |
| MsG0880047515.01.T02 | MTR_1g013430 | 56.701 | 97 | 39 | 2 | 9 | 105 | 16 | 109 | 3.13e-23 | 89.7 |
| MsG0880047515.01.T02 | MTR_1g013410 | 55.102 | 98 | 39 | 3 | 9 | 105 | 16 | 109 | 4.64e-23 | 89.4 |
| MsG0880047515.01.T02 | MTR_7g018090 | 46.341 | 82 | 39 | 2 | 20 | 101 | 28 | 104 | 3.80e-18 | 75.9 |
| MsG0880047515.01.T02 | MTR_0542s0020 | 43.333 | 90 | 46 | 1 | 18 | 107 | 23 | 107 | 4.35e-18 | 76.3 |
| MsG0880047515.01.T02 | MTR_6g016480 | 47.191 | 89 | 39 | 1 | 20 | 108 | 14 | 94 | 1.70e-16 | 71.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0880047515.01.T03 | AT5G57685 | 48.800 | 125 | 43 | 4 | 1 | 122 | 42 | 148 | 1.89e-25 | 94.7 |
| MsG0880047515.01.T03 | AT4G25760 | 45.192 | 104 | 33 | 4 | 1 | 100 | 42 | 125 | 6.21e-20 | 80.1 |
| MsG0880047515.01.T03 | AT4G31730 | 54.167 | 72 | 30 | 1 | 1 | 72 | 44 | 112 | 2.91e-19 | 79.0 |
| MsG0880047515.01.T03 | AT2G24762 | 56.338 | 71 | 28 | 2 | 1 | 71 | 47 | 114 | 3.40e-16 | 71.2 |
| MsG0880047515.01.T01 | AT5G57685 | 53.521 | 142 | 47 | 2 | 21 | 160 | 24 | 148 | 3.76e-41 | 136 |
| MsG0880047515.01.T01 | AT4G25760 | 50.360 | 139 | 41 | 5 | 4 | 138 | 11 | 125 | 2.05e-37 | 125 |
| MsG0880047515.01.T01 | AT4G31730 | 62.222 | 90 | 31 | 1 | 21 | 110 | 26 | 112 | 1.76e-34 | 119 |
| MsG0880047515.01.T01 | AT2G24762 | 64.045 | 89 | 29 | 2 | 21 | 109 | 29 | 114 | 4.96e-31 | 110 |
| MsG0880047515.01.T01 | AT5G24920 | 59.223 | 103 | 29 | 4 | 9 | 108 | 10 | 102 | 3.02e-22 | 87.4 |
| MsG0880047515.01.T02 | AT5G57685 | 53.521 | 142 | 47 | 2 | 14 | 153 | 24 | 148 | 2.43e-41 | 136 |
| MsG0880047515.01.T02 | AT4G25760 | 52.713 | 129 | 37 | 4 | 7 | 131 | 17 | 125 | 2.01e-37 | 125 |
| MsG0880047515.01.T02 | AT4G31730 | 62.222 | 90 | 31 | 1 | 14 | 103 | 26 | 112 | 1.02e-34 | 119 |
| MsG0880047515.01.T02 | AT2G24762 | 64.045 | 89 | 29 | 2 | 14 | 102 | 29 | 114 | 3.79e-31 | 110 |
| MsG0880047515.01.T02 | AT5G24920 | 59.223 | 103 | 29 | 4 | 2 | 101 | 10 | 102 | 2.12e-22 | 87.4 |
Find 38 sgRNAs with CRISPR-Local
Find 40 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAATCCTTGCATGTTCTTAT+TGG | 0.155341 | 8:-87398668 | MsG0880047515.01.T01:CDS |
| TGTTCTTATTGGAAGCTTTC+AGG | 0.189669 | 8:-87398657 | MsG0880047515.01.T01:CDS |
| TGCTCTTTCGCTTACGTTCA+TGG | 0.273294 | 8:+87398791 | None:intergenic |
| GGAGAAAATCTTGGTGATTA+TGG | 0.302149 | 8:-87398544 | MsG0880047515.01.T01:CDS |
| ACTAGTAGATCCTCTTCTTT+TGG | 0.320970 | 8:-87398462 | MsG0880047515.01.T01:CDS |
| CTGATTCACCGTTACCTTCA+AGG | 0.331293 | 8:+87398631 | None:intergenic |
| GCTAAACCACCGAACAAGTA+TGG | 0.332645 | 8:+87398723 | None:intergenic |
| TGTTTCTTTCTCCAGCTTCA+AGG | 0.334128 | 8:+87398601 | None:intergenic |
| GGTGGTTTAGCAGCCATGTT+AGG | 0.391215 | 8:-87398711 | MsG0880047515.01.T01:CDS |
| AAGCTTTCAGGTTACCTTGA+AGG | 0.410189 | 8:-87398645 | MsG0880047515.01.T01:CDS |
| GCTCTTTCGCTTACGTTCAT+GGG | 0.415050 | 8:+87398792 | None:intergenic |
| TCACCAGTTCCATACTTGTT+CGG | 0.456542 | 8:-87398732 | MsG0880047515.01.T01:CDS |
| CCACCGAACAAGTATGGAAC+TGG | 0.482622 | 8:+87398729 | None:intergenic |
| TCGATTTCTGGTCCTTGTCA+TGG | 0.488139 | 8:+87398412 | None:intergenic |
| AAAATCTTGGTGATTATGGC+TGG | 0.497016 | 8:-87398540 | MsG0880047515.01.T01:CDS |
| CTTGGTGTGGCTAAGAATGT+TGG | 0.499407 | 8:+87398507 | None:intergenic |
| ACCTTACGAGGAGAAAATCT+TGG | 0.516809 | 8:-87398553 | MsG0880047515.01.T01:CDS |
| TCAGAAAGAGACCTTGAAGC+TGG | 0.524717 | 8:-87398612 | MsG0880047515.01.T01:CDS |
| TTCTCCTCGTAAGGTTTCTG+TGG | 0.531747 | 8:+87398561 | None:intergenic |
| GTGAAACAAGGAAGCGGTGG+TGG | 0.537465 | 8:-87398363 | MsG0880047515.01.T01:CDS |
| TCAGGTTACCTTGAAGGTAA+CGG | 0.561503 | 8:-87398639 | MsG0880047515.01.T01:CDS |
| CCAGTTCCATACTTGTTCGG+TGG | 0.576033 | 8:-87398729 | MsG0880047515.01.T01:CDS |
| GTGCTTGAAGAAGACATGCT+TGG | 0.588674 | 8:+87398489 | None:intergenic |
| AGTGTTGTCACCAAAAGAAG+AGG | 0.589469 | 8:+87398452 | None:intergenic |
| TGTGGTACTTGTGATGAAGT+TGG | 0.599280 | 8:+87398768 | None:intergenic |
| GCTTCCAATAAGAACATGCA+AGG | 0.603028 | 8:+87398664 | None:intergenic |
| TGTAAGAAGAACAGAAAGTG+TGG | 0.603216 | 8:-87398331 | MsG0880047515.01.T01:CDS |
| AAAAGCTATTAAACCTAACA+TGG | 0.608965 | 8:+87398698 | None:intergenic |
| TGACAAGGACCAGAAATCGA+TGG | 0.633329 | 8:-87398409 | MsG0880047515.01.T01:CDS |
| GATGAATCAAGCGTGAAACA+AGG | 0.634801 | 8:-87398375 | MsG0880047515.01.T01:CDS |
| TCAAGCGTGAAACAAGGAAG+CGG | 0.647604 | 8:-87398369 | MsG0880047515.01.T01:CDS |
| CACAAGTACCACACTCACCA+TGG | 0.651038 | 8:-87398758 | MsG0880047515.01.T01:CDS |
| TTGTACTTGTGACCATGACA+AGG | 0.656704 | 8:-87398424 | MsG0880047515.01.T01:CDS |
| AGCGTGAAACAAGGAAGCGG+TGG | 0.670628 | 8:-87398366 | MsG0880047515.01.T01:CDS |
| GGTGAATGCCATGGTGAGTG+TGG | 0.673399 | 8:+87398750 | None:intergenic |
| TGAAGAAGACATGCTTGGTG+TGG | 0.686592 | 8:+87398494 | None:intergenic |
| TATGGAACTGGTGAATGCCA+TGG | 0.705203 | 8:+87398741 | None:intergenic |
| GAAACCACAGAAACCTTACG+AGG | 0.775642 | 8:-87398565 | MsG0880047515.01.T01:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AAAAGCTATTAAACCTAACA+TGG | + | Chr8:87398405-87398424 | None:intergenic | 25.0% |
| TAATCCTTGCATGTTCTTAT+TGG | - | Chr8:87398432-87398451 | MsG0880047515.01.T01:CDS | 30.0% | |
| !!! | TCATATTTTCCATCGATTTC+TGG | + | Chr8:87398703-87398722 | None:intergenic | 30.0% |
| TGTAAGAAGAACAGAAAGTG+TGG | - | Chr8:87398769-87398788 | MsG0880047515.01.T01:CDS | 35.0% | |
| TGTTCTTATTGGAAGCTTTC+AGG | - | Chr8:87398443-87398462 | MsG0880047515.01.T01:CDS | 35.0% | |
| ! | AAAATCTTGGTGATTATGGC+TGG | - | Chr8:87398560-87398579 | MsG0880047515.01.T01:CDS | 35.0% |
| ! | ACTAGTAGATCCTCTTCTTT+TGG | - | Chr8:87398638-87398657 | MsG0880047515.01.T01:CDS | 35.0% |
| ! | GGAGAAAATCTTGGTGATTA+TGG | - | Chr8:87398556-87398575 | MsG0880047515.01.T01:CDS | 35.0% |
| ACCTTACGAGGAGAAAATCT+TGG | - | Chr8:87398547-87398566 | MsG0880047515.01.T01:CDS | 40.0% | |
| AGTGTTGTCACCAAAAGAAG+AGG | + | Chr8:87398651-87398670 | None:intergenic | 40.0% | |
| GATGAATCAAGCGTGAAACA+AGG | - | Chr8:87398725-87398744 | MsG0880047515.01.T01:CDS | 40.0% | |
| GCTTCCAATAAGAACATGCA+AGG | + | Chr8:87398439-87398458 | None:intergenic | 40.0% | |
| TCACCAGTTCCATACTTGTT+CGG | - | Chr8:87398368-87398387 | MsG0880047515.01.T01:CDS | 40.0% | |
| TCAGGTTACCTTGAAGGTAA+CGG | - | Chr8:87398461-87398480 | MsG0880047515.01.T01:CDS | 40.0% | |
| TGTGGTACTTGTGATGAAGT+TGG | + | Chr8:87398335-87398354 | None:intergenic | 40.0% | |
| TGTTTCTTTCTCCAGCTTCA+AGG | + | Chr8:87398502-87398521 | None:intergenic | 40.0% | |
| TTGTACTTGTGACCATGACA+AGG | - | Chr8:87398676-87398695 | MsG0880047515.01.T01:CDS | 40.0% | |
| ! | ACCAAGATTTTCTCCTCGTA+AGG | + | Chr8:87398551-87398570 | None:intergenic | 40.0% |
| !! | AAGCTTTCAGGTTACCTTGA+AGG | - | Chr8:87398455-87398474 | MsG0880047515.01.T01:CDS | 40.0% |
| CTGATTCACCGTTACCTTCA+AGG | + | Chr8:87398472-87398491 | None:intergenic | 45.0% | |
| GAAACCACAGAAACCTTACG+AGG | - | Chr8:87398535-87398554 | MsG0880047515.01.T01:CDS | 45.0% | |
| GCTAAACCACCGAACAAGTA+TGG | + | Chr8:87398380-87398399 | None:intergenic | 45.0% | |
| GCTCTTTCGCTTACGTTCAT+GGG | + | Chr8:87398311-87398330 | None:intergenic | 45.0% | |
| GTGCTTGAAGAAGACATGCT+TGG | + | Chr8:87398614-87398633 | None:intergenic | 45.0% | |
| TATGGAACTGGTGAATGCCA+TGG | + | Chr8:87398362-87398381 | None:intergenic | 45.0% | |
| TCAAGCGTGAAACAAGGAAG+CGG | - | Chr8:87398731-87398750 | MsG0880047515.01.T01:CDS | 45.0% | |
| TCAGAAAGAGACCTTGAAGC+TGG | - | Chr8:87398488-87398507 | MsG0880047515.01.T01:CDS | 45.0% | |
| TGACAAGGACCAGAAATCGA+TGG | - | Chr8:87398691-87398710 | MsG0880047515.01.T01:CDS | 45.0% | |
| TGCTCTTTCGCTTACGTTCA+TGG | + | Chr8:87398312-87398331 | None:intergenic | 45.0% | |
| TTCTCCTCGTAAGGTTTCTG+TGG | + | Chr8:87398542-87398561 | None:intergenic | 45.0% | |
| ! | CTTGGTGTGGCTAAGAATGT+TGG | + | Chr8:87398596-87398615 | None:intergenic | 45.0% |
| ! | TGAAGAAGACATGCTTGGTG+TGG | + | Chr8:87398609-87398628 | None:intergenic | 45.0% |
| !! | TCGATTTCTGGTCCTTGTCA+TGG | + | Chr8:87398691-87398710 | None:intergenic | 45.0% |
| CACAAGTACCACACTCACCA+TGG | - | Chr8:87398342-87398361 | MsG0880047515.01.T01:CDS | 50.0% | |
| CCACCGAACAAGTATGGAAC+TGG | + | Chr8:87398374-87398393 | None:intergenic | 50.0% | |
| CCAGTTCCATACTTGTTCGG+TGG | - | Chr8:87398371-87398390 | MsG0880047515.01.T01:CDS | 50.0% | |
| GGTGGTTTAGCAGCCATGTT+AGG | - | Chr8:87398389-87398408 | MsG0880047515.01.T01:CDS | 50.0% | |
| AGCGTGAAACAAGGAAGCGG+TGG | - | Chr8:87398734-87398753 | MsG0880047515.01.T01:CDS | 55.0% | |
| GGTGAATGCCATGGTGAGTG+TGG | + | Chr8:87398353-87398372 | None:intergenic | 55.0% | |
| GTGAAACAAGGAAGCGGTGG+TGG | - | Chr8:87398737-87398756 | MsG0880047515.01.T01:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr8 | gene | 87398290 | 87398832 | 87398290 | ID=MsG0880047515.01;Name=MsG0880047515.01 |
| Chr8 | mRNA | 87398290 | 87398832 | 87398290 | ID=MsG0880047515.01.T01;Parent=MsG0880047515.01;Name=MsG0880047515.01.T01;_AED=0.42;_eAED=0.42;_QI=0|-1|0|1|-1|1|1|0|180 |
| Chr8 | exon | 87398290 | 87398832 | 87398290 | ID=MsG0880047515.01.T01:exon:34730;Parent=MsG0880047515.01.T01 |
| Chr8 | CDS | 87398290 | 87398832 | 87398290 | ID=MsG0880047515.01.T01:cds;Parent=MsG0880047515.01.T01 |
| Chr8 | mRNA | 87398290 | 87398811 | 87398290 | ID=MsG0880047515.01.T02;Parent=MsG0880047515.01;Name=MsG0880047515.01.T02;_AED=0.43;_eAED=0.43;_QI=0|-1|0|1|-1|1|1|0|173 |
| Chr8 | exon | 87398290 | 87398811 | 87398290 | ID=MsG0880047515.01.T02:exon:34731;Parent=MsG0880047515.01.T02 |
| Chr8 | CDS | 87398290 | 87398811 | 87398290 | ID=MsG0880047515.01.T02:cds;Parent=MsG0880047515.01.T02 |
| Chr8 | mRNA | 87398290 | 87398718 | 87398290 | ID=MsG0880047515.01.T03;Parent=MsG0880047515.01;Name=MsG0880047515.01.T03;_AED=0.44;_eAED=0.44;_QI=0|-1|0|1|-1|0|1|0|142 |
| Chr8 | exon | 87398290 | 87398718 | 87398290 | ID=MsG0880047515.01.T03:exon:34732;Parent=MsG0880047515.01.T03 |
| Chr8 | CDS | 87398290 | 87398718 | 87398290 | ID=MsG0880047515.01.T03:cds;Parent=MsG0880047515.01.T03 |
| Gene Sequence |
| Protein sequence |
