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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0082540 | XP_013469214.1 | 97.980 | 99 | 2 | 0 | 1 | 99 | 1 | 99 | 1.93e-64 | 199 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0082540 | sp|Q9M9Y9|GRS11_ARATH | 75.258 | 97 | 24 | 0 | 1 | 97 | 1 | 97 | 1.75e-51 | 159 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0082540 | A0A072VN37 | 97.980 | 99 | 2 | 0 | 1 | 99 | 1 | 99 | 9.24e-65 | 199 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0082540 | Msa0082550 | 0.871389 | 7.094436e-67 | -8.615850e-47 |
| Msa0082540 | Msa0138230 | 0.957114 | 5.912028e-115 | -8.615850e-47 |
| Msa0082540 | Msa0138240 | 0.872239 | 3.704440e-67 | -8.615850e-47 |
| Msa0082540 | Msa0175630 | 0.869028 | 4.206227e-66 | -8.615850e-47 |
| Msa0082540 | Msa0175640 | 0.911250 | 7.523267e-83 | -8.615850e-47 |
| Msa0082540 | Msa0282600 | 0.805434 | 1.337778e-49 | -8.615850e-47 |
| Msa0082540 | Msa0416800 | 0.824158 | 9.390469e-54 | -8.615850e-47 |
| Msa0082540 | Msa0463460 | 0.804605 | 1.993322e-49 | -8.615850e-47 |
| Msa0082540 | Msa0509020 | 0.808608 | 2.849136e-50 | -8.615850e-47 |
| Msa0082540 | Msa0790230 | 0.872590 | 2.830107e-67 | -8.615850e-47 |
| Msa0082540 | Msa0790240 | 0.949000 | 3.074963e-107 | -8.615850e-47 |
| Msa0082540 | Msa1400460 | 0.959807 | 7.516042e-118 | -8.615850e-47 |
| Msa0082540 | Msa1400470 | 0.869289 | 3.462356e-66 | -8.615850e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0082540 | MtrunA17_Chr1g0195981 | 97.980 | 99 | 2 | 0 | 1 | 99 | 1 | 99 | 1.78e-68 | 199 |
| Msa0082540 | MtrunA17_Chr1g0195991 | 94.949 | 99 | 5 | 0 | 1 | 99 | 1 | 99 | 1.13e-67 | 197 |
| Msa0082540 | MtrunA17_Chr7g0268711 | 78.571 | 98 | 21 | 0 | 1 | 98 | 1 | 98 | 1.15e-57 | 172 |
| Msa0082540 | MtrunA17_Chr2g0286251 | 58.947 | 95 | 39 | 0 | 1 | 95 | 1 | 95 | 2.77e-39 | 126 |
| Msa0082540 | MtrunA17_Chr1g0195971 | 55.102 | 98 | 44 | 0 | 1 | 98 | 1 | 98 | 4.99e-37 | 120 |
| Msa0082540 | MtrunA17_Chr2g0286271 | 55.789 | 95 | 42 | 0 | 1 | 95 | 1 | 95 | 2.24e-36 | 119 |
| Msa0082540 | MtrunA17_Chr7g0222541 | 54.167 | 96 | 43 | 1 | 1 | 95 | 30 | 125 | 3.67e-35 | 116 |
| Msa0082540 | MtrunA17_Chr7g0222551 | 53.125 | 96 | 44 | 1 | 1 | 95 | 30 | 125 | 1.21e-34 | 115 |
| Msa0082540 | MtrunA17_Chr7g0224091 | 54.167 | 96 | 43 | 1 | 1 | 95 | 22 | 117 | 1.53e-34 | 115 |
| Msa0082540 | MtrunA17_Chr7g0222491 | 53.125 | 96 | 44 | 1 | 1 | 95 | 30 | 125 | 1.25e-33 | 112 |
| Msa0082540 | MtrunA17_Chr4g0066791 | 52.083 | 96 | 45 | 1 | 1 | 95 | 1 | 96 | 2.11e-32 | 108 |
| Msa0082540 | MtrunA17_Chr4g0066801 | 52.083 | 96 | 45 | 1 | 1 | 95 | 1 | 96 | 2.11e-32 | 108 |
| Msa0082540 | MtrunA17_Chr4g0066811 | 52.083 | 96 | 45 | 1 | 1 | 95 | 1 | 96 | 2.11e-32 | 108 |
| Msa0082540 | MtrunA17_Chr7g0268731 | 52.632 | 95 | 44 | 1 | 1 | 94 | 1 | 95 | 1.40e-31 | 107 |
| Msa0082540 | MtrunA17_Chr7g0268721 | 51.579 | 95 | 45 | 1 | 1 | 94 | 1 | 95 | 9.51e-31 | 104 |
| Msa0082540 | MtrunA17_Chr7g0268751 | 43.158 | 95 | 54 | 0 | 1 | 95 | 1 | 95 | 1.26e-25 | 91.7 |
| Msa0082540 | MtrunA17_Chr1g0195951 | 40.426 | 94 | 56 | 0 | 1 | 94 | 1 | 94 | 3.71e-25 | 90.5 |
| Msa0082540 | MtrunA17_Chr1g0195931 | 44.898 | 98 | 54 | 0 | 1 | 98 | 1 | 98 | 1.73e-21 | 81.3 |
| Msa0082540 | MtrunA17_Chr2g0303741 | 41.837 | 98 | 53 | 1 | 2 | 95 | 40 | 137 | 4.49e-21 | 81.3 |
| Msa0082540 | MtrunA17_Chr7g0268761 | 41.489 | 94 | 55 | 0 | 1 | 94 | 1 | 94 | 5.05e-20 | 77.4 |
| Msa0082540 | MtrunA17_Chr2g0282951 | 40.426 | 94 | 56 | 0 | 2 | 95 | 27 | 120 | 7.14e-20 | 77.8 |
| Msa0082540 | MtrunA17_Chr2g0325001 | 36.458 | 96 | 54 | 2 | 4 | 95 | 41 | 133 | 2.94e-18 | 73.9 |
| Msa0082540 | MtrunA17_Chr3g0117411 | 35.789 | 95 | 61 | 0 | 1 | 95 | 18 | 112 | 1.97e-16 | 68.9 |
| Msa0082540 | MtrunA17_Chr4g0040601 | 38.710 | 93 | 52 | 3 | 6 | 95 | 58 | 148 | 6.50e-16 | 68.6 |
| Msa0082540 | MtrunA17_Chr3g0117391 | 34.043 | 94 | 62 | 0 | 1 | 94 | 21 | 114 | 9.24e-16 | 67.4 |
| Msa0082540 | MtrunA17_Chr7g0228311 | 35.106 | 94 | 61 | 0 | 1 | 94 | 3 | 96 | 6.65e-15 | 64.7 |
| Msa0082540 | MtrunA17_Chr1g0151231 | 38.298 | 94 | 56 | 1 | 3 | 94 | 48 | 141 | 8.67e-15 | 65.5 |
| Msa0082540 | MtrunA17_Chr1g0182971 | 32.979 | 94 | 62 | 1 | 2 | 94 | 84 | 177 | 6.48e-14 | 63.9 |
| Msa0082540 | MtrunA17_Chr3g0135811 | 38.710 | 93 | 51 | 3 | 3 | 94 | 23 | 110 | 1.08e-13 | 61.6 |
| Msa0082540 | MtrunA17_Chr5g0434201 | 33.333 | 96 | 62 | 1 | 2 | 95 | 21 | 116 | 7.25e-11 | 54.7 |
| Msa0082540 | MtrunA17_Chr2g0299021 | 30.108 | 93 | 65 | 0 | 2 | 94 | 84 | 176 | 9.87e-11 | 55.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0082540 | AT1G06830.1 | 75.258 | 97 | 24 | 0 | 1 | 97 | 1 | 97 | 1.78e-52 | 159 |
| Msa0082540 | AT2G30540.1 | 70.408 | 98 | 29 | 0 | 1 | 98 | 1 | 98 | 3.42e-52 | 159 |
| Msa0082540 | AT2G47880.1 | 72.449 | 98 | 27 | 0 | 1 | 98 | 1 | 98 | 4.12e-52 | 159 |
| Msa0082540 | AT3G62960.1 | 70.408 | 98 | 29 | 0 | 1 | 98 | 1 | 98 | 1.13e-50 | 155 |
| Msa0082540 | AT3G62950.1 | 51.042 | 96 | 46 | 1 | 1 | 95 | 1 | 96 | 1.01e-36 | 120 |
| Msa0082540 | AT2G47870.1 | 53.125 | 96 | 44 | 1 | 1 | 95 | 1 | 96 | 9.83e-36 | 117 |
| Msa0082540 | AT3G21460.1 | 54.737 | 95 | 43 | 0 | 1 | 95 | 1 | 95 | 3.43e-34 | 114 |
| Msa0082540 | AT4G15670.1 | 50.526 | 95 | 47 | 0 | 1 | 95 | 1 | 95 | 4.18e-34 | 113 |
| Msa0082540 | AT4G15660.1 | 49.485 | 97 | 49 | 0 | 1 | 97 | 1 | 97 | 1.42e-33 | 112 |
| Msa0082540 | AT4G15680.1 | 51.579 | 95 | 46 | 0 | 1 | 95 | 1 | 95 | 1.42e-33 | 112 |
| Msa0082540 | AT4G15700.1 | 51.579 | 95 | 46 | 0 | 1 | 95 | 1 | 95 | 1.50e-33 | 112 |
| Msa0082540 | AT4G15690.1 | 50.526 | 95 | 47 | 0 | 1 | 95 | 1 | 95 | 1.30e-32 | 109 |
| Msa0082540 | AT5G18600.1 | 48.421 | 95 | 49 | 0 | 1 | 95 | 1 | 95 | 1.70e-31 | 107 |
| Msa0082540 | AT5G14070.1 | 46.602 | 103 | 47 | 2 | 1 | 95 | 31 | 133 | 4.19e-27 | 97.1 |
| Msa0082540 | AT3G02000.1 | 46.465 | 99 | 47 | 1 | 3 | 95 | 31 | 129 | 2.54e-25 | 92.4 |
| Msa0082540 | AT3G62930.1 | 43.158 | 95 | 54 | 0 | 1 | 95 | 1 | 95 | 3.45e-25 | 90.9 |
| Msa0082540 | AT1G03020.1 | 45.263 | 95 | 52 | 0 | 1 | 95 | 1 | 95 | 7.84e-25 | 90.1 |
| Msa0082540 | AT4G33040.1 | 42.268 | 97 | 50 | 2 | 3 | 94 | 41 | 136 | 2.28e-17 | 72.4 |
| Msa0082540 | AT1G28480.1 | 36.735 | 98 | 58 | 2 | 2 | 95 | 33 | 130 | 4.36e-17 | 71.2 |
| Msa0082540 | AT5G40370.1 | 32.979 | 94 | 63 | 0 | 1 | 94 | 3 | 96 | 9.67e-15 | 64.7 |
| Msa0082540 | AT4G28730.1 | 35.106 | 94 | 60 | 1 | 2 | 94 | 71 | 164 | 1.57e-14 | 65.5 |
| Msa0082540 | AT5G11930.1 | 40.860 | 93 | 45 | 3 | 3 | 94 | 57 | 140 | 4.48e-14 | 63.9 |
| Msa0082540 | AT5G63030.1 | 36.585 | 82 | 52 | 0 | 13 | 94 | 31 | 112 | 1.64e-12 | 59.3 |
| Msa0082540 | AT2G20270.1 | 34.043 | 94 | 61 | 1 | 2 | 94 | 76 | 169 | 8.44e-12 | 58.5 |
| Msa0082540 | AT5G20500.1 | 31.868 | 91 | 62 | 0 | 4 | 94 | 35 | 125 | 1.45e-11 | 57.0 |
| Msa0082540 | AT1G03850.2 | 34.884 | 86 | 52 | 2 | 10 | 95 | 62 | 143 | 7.01e-11 | 55.5 |
| Msa0082540 | AT4G28730.2 | 37.143 | 70 | 43 | 1 | 2 | 70 | 71 | 140 | 8.28e-11 | 55.5 |
Find 33 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACATTCTGTTTCAAGAAAT+TGG | 0.120000 | 1_2:+61380595 | Msa0082540:CDS |
| CCTGTCCCTGCAGTATTCAT+TGG | 0.377127 | 1_2:+61380703 | Msa0082540:CDS |
| AGATCCTGAAGGAAAAGAAA+TGG | 0.394593 | 1_2:+61380648 | Msa0082540:CDS |
| GTGGAGGGACATTACTTCAT+TGG | 0.411453 | 1_2:-61380746 | None:intergenic |
| GGAGAAAGCTATAACAAAGT+TGG | 0.418322 | 1_2:+61380669 | Msa0082540:CDS |
| GAGAAAGCTATAACAAAGTT+GGG | 0.448427 | 1_2:+61380670 | Msa0082540:CDS |
| GATGAGGTTGGCTACAGAAA+AGG | 0.457049 | 1_2:+61380525 | Msa0082540:CDS |
| TTCATTGGAGGAAAGCTTGT+GGG | 0.469806 | 1_2:+61380718 | Msa0082540:CDS |
| TTTCCTCCAATGAATACTGC+AGG | 0.495376 | 1_2:-61380709 | None:intergenic |
| TTGTCAATTTCATGAACCAC+AGG | 0.499275 | 1_2:-61380625 | None:intergenic |
| TGATCAAATTAAGCTAAATA+CGG | 0.503808 | 1_2:-61380804 | None:intergenic |
| ATGAGGTTGGCTACAGAAAA+GGG | 0.514459 | 1_2:+61380526 | Msa0082540:CDS |
| GATGGAGAAGGTGATGAGGT+TGG | 0.515048 | 1_2:+61380513 | None:intergenic |
| GCACAAACAACAAGAGCTCT+TGG | 0.517591 | 1_2:-61380563 | None:intergenic |
| CCAATGAATACTGCAGGGAC+AGG | 0.522380 | 1_2:-61380703 | None:intergenic |
| GAGGGACATTACTTCATTGG+TGG | 0.543110 | 1_2:-61380743 | None:intergenic |
| GTCCCTGCAGTATTCATTGG+AGG | 0.543693 | 1_2:+61380706 | Msa0082540:CDS |
| AAATTAAGCTAAATACGGTA+TGG | 0.562707 | 1_2:-61380799 | None:intergenic |
| CGAGTGAACCACTTAGGTGG+AGG | 0.574745 | 1_2:-61380762 | None:intergenic |
| ATACGGTATGGCCTAAGTAG+TGG | 0.575235 | 1_2:-61380787 | None:intergenic |
| GTAATGTCCCTCCACCTAAG+TGG | 0.591093 | 1_2:+61380754 | Msa0082540:CDS |
| GTTCACTCGTTCCACTACTT+AGG | 0.591318 | 1_2:+61380776 | Msa0082540:CDS |
| GTGGAACGAGTGAACCACTT+AGG | 0.595515 | 1_2:-61380768 | None:intergenic |
| CAGTTATATTAAGATGGAGA+AGG | 0.604195 | 1_2:+61380501 | None:intergenic |
| TCATTGGAGGAAAGCTTGTG+GGG | 0.613505 | 1_2:+61380719 | Msa0082540:CDS |
| GAAATTGACAAAGATCCTGA+AGG | 0.616874 | 1_2:+61380637 | Msa0082540:CDS |
| ATTCATTGGAGGAAAGCTTG+TGG | 0.621609 | 1_2:+61380717 | Msa0082540:CDS |
| GAACGAGTGAACCACTTAGG+TGG | 0.634239 | 1_2:-61380765 | None:intergenic |
| TTCCTCCAATGAATACTGCA+GGG | 0.637919 | 1_2:-61380708 | None:intergenic |
| GAGTGAACCACTTAGGTGGA+GGG | 0.652910 | 1_2:-61380761 | None:intergenic |
| TTAAGATGGAGAAGGTGATG+AGG | 0.668317 | 1_2:+61380509 | None:intergenic |
| TGTCAATTTCATGAACCACA+GGG | 0.678104 | 1_2:-61380624 | None:intergenic |
| AGAAATTGGAGTGTTCCCTG+TGG | 0.708961 | 1_2:+61380609 | Msa0082540:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AACATTCTGTTTCAAGAAAT+TGG | + | chr1_2:61380595-61380614 | Msa0082540:CDS | 25.0% |
| GAGAAAGCTATAACAAAGTT+GGG | + | chr1_2:61380670-61380689 | Msa0082540:CDS | 30.0% | |
| TGTCAATTTCATGAACCACA+GGG | - | chr1_2:61380627-61380646 | None:intergenic | 35.0% | |
| TTGTCAATTTCATGAACCAC+AGG | - | chr1_2:61380628-61380647 | None:intergenic | 35.0% | |
| GAAATTGACAAAGATCCTGA+AGG | + | chr1_2:61380637-61380656 | Msa0082540:CDS | 35.0% | |
| AGATCCTGAAGGAAAAGAAA+TGG | + | chr1_2:61380648-61380667 | Msa0082540:CDS | 35.0% | |
| ! | TTCTCCATTTCTTTTCCTTC+AGG | - | chr1_2:61380655-61380674 | None:intergenic | 35.0% |
| GGAGAAAGCTATAACAAAGT+TGG | + | chr1_2:61380669-61380688 | Msa0082540:CDS | 35.0% | |
| ! | ATGAGGTTGGCTACAGAAAA+GGG | + | chr1_2:61380526-61380545 | Msa0082540:CDS | 40.0% |
| TTCCTCCAATGAATACTGCA+GGG | - | chr1_2:61380711-61380730 | None:intergenic | 40.0% | |
| TTTCCTCCAATGAATACTGC+AGG | - | chr1_2:61380712-61380731 | None:intergenic | 40.0% | |
| ATTCATTGGAGGAAAGCTTG+TGG | + | chr1_2:61380717-61380736 | Msa0082540:CDS | 40.0% | |
| TTCATTGGAGGAAAGCTTGT+GGG | + | chr1_2:61380718-61380737 | Msa0082540:CDS | 40.0% | |
| ! | GATGAGGTTGGCTACAGAAA+AGG | + | chr1_2:61380525-61380544 | Msa0082540:CDS | 45.0% |
| GCACAAACAACAAGAGCTCT+TGG | - | chr1_2:61380566-61380585 | None:intergenic | 45.0% | |
| ! | AGAAATTGGAGTGTTCCCTG+TGG | + | chr1_2:61380609-61380628 | Msa0082540:CDS | 45.0% |
| TCATTGGAGGAAAGCTTGTG+GGG | + | chr1_2:61380719-61380738 | Msa0082540:CDS | 45.0% | |
| GAGGGACATTACTTCATTGG+TGG | - | chr1_2:61380746-61380765 | None:intergenic | 45.0% | |
| GTGGAGGGACATTACTTCAT+TGG | - | chr1_2:61380749-61380768 | None:intergenic | 45.0% | |
| GTTCACTCGTTCCACTACTT+AGG | + | chr1_2:61380776-61380795 | Msa0082540:CDS | 45.0% | |
| ATACGGTATGGCCTAAGTAG+TGG | - | chr1_2:61380790-61380809 | None:intergenic | 45.0% | |
| CCAATGAATACTGCAGGGAC+AGG | - | chr1_2:61380706-61380725 | None:intergenic | 50.0% | |
| CCTGTCCCTGCAGTATTCAT+TGG | + | chr1_2:61380703-61380722 | Msa0082540:CDS | 50.0% | |
| GTCCCTGCAGTATTCATTGG+AGG | + | chr1_2:61380706-61380725 | Msa0082540:CDS | 50.0% | |
| GTAATGTCCCTCCACCTAAG+TGG | + | chr1_2:61380754-61380773 | Msa0082540:CDS | 50.0% | |
| GAGTGAACCACTTAGGTGGA+GGG | - | chr1_2:61380764-61380783 | None:intergenic | 50.0% | |
| GAACGAGTGAACCACTTAGG+TGG | - | chr1_2:61380768-61380787 | None:intergenic | 50.0% | |
| GTGGAACGAGTGAACCACTT+AGG | - | chr1_2:61380771-61380790 | None:intergenic | 50.0% | |
| CGAGTGAACCACTTAGGTGG+AGG | - | chr1_2:61380765-61380784 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 61380514 | 61380813 | 61380514 | ID=Msa0082540;Name=Msa0082540 |
| chr1_2 | mRNA | 61380514 | 61380813 | 61380514 | ID=Msa0082540-mRNA-1;Parent=Msa0082540;Name=Msa0082540-mRNA-1;_AED=0.29;_eAED=0.29;_QI=0|-1|0|1|-1|1|1|0|99 |
| chr1_2 | exon | 61380514 | 61380813 | 61380514 | ID=Msa0082540-mRNA-1:exon:20292;Parent=Msa0082540-mRNA-1 |
| chr1_2 | CDS | 61380514 | 61380813 | 61380514 | ID=Msa0082540-mRNA-1:cds;Parent=Msa0082540-mRNA-1 |
| Gene Sequence |
| Protein sequence |
