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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0386790 | XP_024633411.1 | 100.000 | 81 | 0 | 0 | 1 | 81 | 1 | 81 | 1.75e-52 | 169 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0386790 | sp|Q1A173|RADL6_ARATH | 67.500 | 80 | 22 | 1 | 1 | 80 | 1 | 76 | 4.92e-34 | 115 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0386790 | G7J732 | 100.000 | 81 | 0 | 0 | 1 | 81 | 1 | 81 | 8.38e-53 | 169 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0386790 | TF | MYB-related |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0089410 | Msa0386790 | 0.813446 | 2.548739e-51 | -8.615850e-47 |
| Msa0114960 | Msa0386790 | 0.811781 | 5.895108e-51 | -8.615850e-47 |
| Msa0118250 | Msa0386790 | 0.806661 | 7.379811e-50 | -8.615850e-47 |
| Msa0136520 | Msa0386790 | 0.822401 | 2.416792e-53 | -8.615850e-47 |
| Msa0166580 | Msa0386790 | 0.804181 | 2.443296e-49 | -8.615850e-47 |
| Msa0201910 | Msa0386790 | 0.811151 | 8.080441e-51 | -8.615850e-47 |
| Msa0226580 | Msa0386790 | 0.812931 | 3.307521e-51 | -8.615850e-47 |
| Msa0386790 | Msa0429500 | 0.802627 | 5.129507e-49 | -8.615850e-47 |
| Msa0386790 | Msa0523830 | 0.939501 | 1.144108e-99 | -8.615850e-47 |
| Msa0386790 | Msa0569630 | 0.804764 | 1.847027e-49 | -8.615850e-47 |
| Msa0386790 | Msa0575970 | 0.811519 | 6.724068e-51 | -8.615850e-47 |
| Msa0386790 | Msa0577140 | 0.803359 | 3.619434e-49 | -8.615850e-47 |
| Msa0386790 | Msa0587060 | 0.830645 | 2.613903e-55 | -8.615850e-47 |
| Msa0386790 | Msa0622400 | 0.800180 | 1.626438e-48 | -8.615850e-47 |
| Msa0386790 | Msa0623480 | 0.811727 | 6.059153e-51 | -8.615850e-47 |
| Msa0386790 | Msa0661840 | 0.921148 | 5.188168e-88 | -8.615850e-47 |
| Msa0386790 | Msa0665010 | 0.824728 | 6.898238e-54 | -8.615850e-47 |
| Msa0386790 | Msa0712580 | 0.800532 | 1.378739e-48 | -8.615850e-47 |
| Msa0386790 | Msa0835010 | 0.803263 | 3.790268e-49 | -8.615850e-47 |
| Msa0386790 | Msa0938190 | 0.807415 | 5.111556e-50 | -8.615850e-47 |
| Msa0386790 | Msa1151970 | 0.803575 | 3.265399e-49 | -8.615850e-47 |
| Msa0386790 | Msa1182950 | 0.812613 | 3.882811e-51 | -8.615850e-47 |
| Msa0386790 | Msa1182960 | 0.800212 | 1.601918e-48 | -8.615850e-47 |
| Msa0386790 | Msa1186010 | 0.801468 | 8.878391e-49 | -8.615850e-47 |
| Msa0386790 | Msa1204390 | 0.803105 | 4.085009e-49 | -8.615850e-47 |
| Msa0386790 | Msa1229880 | 0.810732 | 9.956950e-51 | -8.615850e-47 |
| Msa0386790 | Msa1296610 | 0.801722 | 7.873060e-49 | -8.615850e-47 |
| Msa0386790 | Msa1310620 | 0.804865 | 1.759753e-49 | -8.615850e-47 |
| Msa0386790 | Msa1329020 | 0.801316 | 9.539131e-49 | -8.615850e-47 |
| Msa0386790 | Msa1351560 | 0.806746 | 7.082441e-50 | -8.615850e-47 |
| Msa0386790 | Msa1368800 | 0.806651 | 7.415575e-50 | -8.615850e-47 |
| Msa0386790 | Msa1391600 | 0.813286 | 2.763516e-51 | -8.615850e-47 |
| Msa0386790 | Msa1397550 | 0.822694 | 2.065228e-53 | -8.615850e-47 |
| Msa0386790 | Msa1418060 | 0.961003 | 3.355033e-119 | -8.615850e-47 |
| Msa0386790 | Msa1433380 | 0.821142 | 4.723886e-53 | -8.615850e-47 |
| Msa0386790 | Msa1450850 | 0.801056 | 1.077982e-48 | -8.615850e-47 |
| Msa0249670 | Msa0386790 | 0.812884 | 3.386848e-51 | -8.615850e-47 |
| Msa0282880 | Msa0386790 | 0.806660 | 7.383537e-50 | -8.615850e-47 |
| Msa0327870 | Msa0386790 | 0.807904 | 4.024704e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0386790 | MtrunA17_Chr3g0144631 | 100.000 | 81 | 0 | 0 | 1 | 81 | 1 | 81 | 1.61e-56 | 169 |
| Msa0386790 | MtrunA17_Chr1g0155181 | 71.014 | 69 | 20 | 0 | 14 | 82 | 5 | 73 | 1.80e-34 | 113 |
| Msa0386790 | MtrunA17_Chr3g0141601 | 69.565 | 69 | 21 | 0 | 14 | 82 | 5 | 73 | 7.05e-32 | 107 |
| Msa0386790 | MtrunA17_Chr7g0255841 | 72.308 | 65 | 18 | 0 | 19 | 83 | 15 | 79 | 1.70e-30 | 103 |
| Msa0386790 | MtrunA17_Chr3g0081631 | 62.963 | 81 | 23 | 2 | 1 | 80 | 1 | 75 | 6.13e-29 | 99.8 |
| Msa0386790 | MtrunA17_Chr8g0373131 | 62.687 | 67 | 24 | 1 | 16 | 82 | 5 | 70 | 2.39e-27 | 95.1 |
| Msa0386790 | MtrunA17_Chr8g0373111 | 62.687 | 67 | 24 | 1 | 16 | 82 | 5 | 70 | 2.43e-27 | 95.1 |
| Msa0386790 | MtrunA17_Chr8g0373121 | 62.687 | 67 | 24 | 1 | 16 | 82 | 5 | 70 | 2.43e-27 | 95.1 |
| Msa0386790 | MtrunA17_Chr5g0404101 | 60.938 | 64 | 25 | 0 | 16 | 79 | 19 | 82 | 7.98e-26 | 92.0 |
| Msa0386790 | MtrunA17_Chr6g0449111 | 60.000 | 65 | 26 | 0 | 14 | 78 | 8 | 72 | 1.71e-25 | 90.5 |
| Msa0386790 | MtrunA17_Chr5g0404301 | 68.852 | 61 | 18 | 1 | 16 | 76 | 4 | 63 | 2.05e-25 | 89.7 |
| Msa0386790 | MtrunA17_Chr8g0373101 | 63.492 | 63 | 22 | 1 | 14 | 76 | 3 | 64 | 3.83e-25 | 89.4 |
| Msa0386790 | MtrunA17_Chr3g0141641 | 52.239 | 67 | 32 | 0 | 16 | 82 | 3 | 69 | 8.41e-22 | 81.6 |
| Msa0386790 | MtrunA17_Chr8g0364741 | 45.122 | 82 | 39 | 1 | 16 | 91 | 10 | 91 | 2.68e-21 | 81.3 |
| Msa0386790 | MtrunA17_Chr5g0429521 | 53.623 | 69 | 32 | 0 | 16 | 84 | 29 | 97 | 6.49e-21 | 84.3 |
| Msa0386790 | MtrunA17_Chr8g0365011 | 52.239 | 67 | 32 | 0 | 14 | 80 | 6 | 72 | 2.33e-20 | 82.4 |
| Msa0386790 | MtrunA17_Chr3g0104071 | 56.522 | 69 | 30 | 0 | 16 | 84 | 43 | 111 | 1.56e-19 | 80.5 |
| Msa0386790 | MtrunA17_Chr7g0241761 | 50.000 | 70 | 35 | 0 | 14 | 83 | 33 | 102 | 2.66e-18 | 77.0 |
| Msa0386790 | MtrunA17_Chr5g0436501 | 50.000 | 68 | 34 | 0 | 16 | 83 | 27 | 94 | 4.44e-18 | 76.3 |
| Msa0386790 | MtrunA17_Chr1g0162081 | 45.455 | 77 | 42 | 0 | 14 | 90 | 10 | 86 | 8.36e-18 | 75.9 |
| Msa0386790 | MtrunA17_Chr7g0270711 | 50.000 | 80 | 33 | 2 | 16 | 88 | 11 | 90 | 1.69e-16 | 68.2 |
| Msa0386790 | MtrunA17_Chr1g0194071 | 59.649 | 57 | 22 | 1 | 16 | 71 | 11 | 67 | 7.93e-16 | 66.6 |
| Msa0386790 | MtrunA17_Chr1g0210471 | 47.619 | 63 | 33 | 0 | 16 | 78 | 24 | 86 | 1.14e-15 | 69.3 |
| Msa0386790 | MtrunA17_Chr4g0062741 | 40.000 | 70 | 39 | 1 | 12 | 78 | 4 | 73 | 2.70e-13 | 63.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0386790 | AT1G75250.1 | 67.500 | 80 | 22 | 1 | 1 | 80 | 1 | 76 | 3.36e-35 | 117 |
| Msa0386790 | AT1G75250.2 | 67.500 | 80 | 22 | 1 | 1 | 80 | 1 | 76 | 5.01e-35 | 115 |
| Msa0386790 | AT4G39250.1 | 69.697 | 66 | 20 | 0 | 16 | 81 | 14 | 79 | 1.46e-33 | 112 |
| Msa0386790 | AT2G21650.1 | 65.672 | 67 | 23 | 0 | 16 | 82 | 14 | 80 | 2.14e-30 | 103 |
| Msa0386790 | AT1G19510.1 | 71.429 | 63 | 18 | 0 | 19 | 81 | 15 | 77 | 1.68e-29 | 101 |
| Msa0386790 | AT2G18328.1 | 69.841 | 63 | 19 | 0 | 19 | 81 | 14 | 76 | 9.69e-29 | 99.0 |
| Msa0386790 | AT4G36570.1 | 77.273 | 44 | 10 | 0 | 16 | 59 | 12 | 55 | 3.13e-21 | 79.3 |
| Msa0386790 | AT5G05790.2 | 52.941 | 68 | 32 | 0 | 14 | 81 | 29 | 96 | 6.05e-18 | 76.3 |
| Msa0386790 | AT5G05790.1 | 52.941 | 68 | 32 | 0 | 14 | 81 | 29 | 96 | 6.05e-18 | 76.3 |
| Msa0386790 | AT2G38090.1 | 53.846 | 65 | 30 | 0 | 16 | 80 | 29 | 93 | 1.46e-17 | 75.5 |
| Msa0386790 | AT5G58900.1 | 49.231 | 65 | 33 | 0 | 14 | 78 | 32 | 96 | 2.53e-17 | 74.7 |
| Msa0386790 | AT3G11280.2 | 47.826 | 69 | 36 | 0 | 16 | 84 | 33 | 101 | 4.83e-17 | 73.6 |
| Msa0386790 | AT3G11280.1 | 47.826 | 69 | 36 | 0 | 16 | 84 | 33 | 101 | 4.83e-17 | 73.6 |
| Msa0386790 | AT5G08520.1 | 49.254 | 67 | 34 | 0 | 14 | 80 | 10 | 76 | 3.80e-16 | 71.6 |
| Msa0386790 | AT5G04760.1 | 41.791 | 67 | 38 | 1 | 12 | 78 | 2 | 67 | 3.23e-13 | 62.8 |
| Msa0386790 | AT1G49010.1 | 42.647 | 68 | 36 | 1 | 14 | 78 | 6 | 73 | 1.58e-12 | 61.6 |
| Msa0386790 | AT5G01200.1 | 43.284 | 67 | 37 | 1 | 13 | 78 | 27 | 93 | 3.84e-12 | 60.5 |
| Msa0386790 | AT5G23650.1 | 39.189 | 74 | 45 | 0 | 5 | 78 | 2 | 75 | 3.52e-11 | 58.2 |
Find 23 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTTCACGTGGATTTGTAATT+TGG | 0.099924 | 3_1:-90596132 | None:intergenic |
| ACAAGCCTTGTGATTCAATT+TGG | 0.187124 | 3_1:+90595932 | Msa0386790:CDS |
| TCAAAATTACAAAATCTGAT+AGG | 0.347322 | 3_1:-90596405 | None:intergenic |
| GTGGATTTGTAATTTGGAAT+AGG | 0.364725 | 3_1:-90596126 | None:intergenic |
| CTTATATAGATGCTTGCCTC+AGG | 0.419615 | 3_1:+90596314 | Msa0386790:intron |
| AGCACTTGCAAAATTTGATA+AGG | 0.422428 | 3_1:+90595984 | Msa0386790:CDS |
| CTGAAGTATCTAAAGTTGAA+TGG | 0.424280 | 3_1:+90596340 | Msa0386790:CDS |
| CAAAATTACAAAATCTGATA+GGG | 0.464530 | 3_1:-90596404 | None:intergenic |
| CACAAGGCTTGTGTTTGCTA+AGG | 0.474591 | 3_1:-90595921 | None:intergenic |
| GATCTCAAACACATTGAGTC+TGG | 0.498892 | 3_1:+90596096 | Msa0386790:CDS |
| AGACAGATGGAGGAACAAAC+AGG | 0.503947 | 3_1:-90596381 | None:intergenic |
| GAGACACTATGAGCTACTCT+TGG | 0.504426 | 3_1:+90596071 | Msa0386790:CDS |
| ACAAGGCTTGTGTTTGCTAA+GGG | 0.544579 | 3_1:-90595920 | None:intergenic |
| ACACTATGAGCTACTCTTGG+AGG | 0.567606 | 3_1:+90596074 | Msa0386790:CDS |
| GTGTTTGCTAAGGGAACTTG+AGG | 0.586339 | 3_1:-90595911 | None:intergenic |
| AATGTAGCAAAAGCAGTTGG+TGG | 0.597235 | 3_1:+90596027 | Msa0386790:CDS |
| CAAAATGTAGCAAAAGCAGT+TGG | 0.599555 | 3_1:+90596024 | Msa0386790:CDS |
| GGAGTCCAAATTGAATCACA+AGG | 0.603739 | 3_1:-90595937 | None:intergenic |
| ATAAGGATACCCCTGACCGT+TGG | 0.605106 | 3_1:+90596001 | Msa0386790:CDS |
| AAATCTGATAGGGAGACAGA+TGG | 0.611076 | 3_1:-90596394 | None:intergenic |
| AGTTGGTGGTAAATCAGTTG+AGG | 0.635333 | 3_1:+90596041 | Msa0386790:CDS |
| TTAGATACTTCAGAAGCCTG+AGG | 0.659984 | 3_1:-90596330 | None:intergenic |
| TCTGATAGGGAGACAGATGG+AGG | 0.662436 | 3_1:-90596391 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAAGAAAAAAAATATCATA+AGG | + | chr3_1:90596179-90596198 | Msa0386790:intron | 10.0% |
| !!! | TCAAACAACTTGTTTTGTTT+TGG | - | chr3_1:90595961-90595980 | None:intergenic | 25.0% |
| ! | GAAACATGAACAAAAAATAG+TGG | - | chr3_1:90596250-90596269 | None:intergenic | 25.0% |
| AGCACTTGCAAAATTTGATA+AGG | + | chr3_1:90595984-90596003 | Msa0386790:CDS | 30.0% | |
| ! | GTGGATTTGTAATTTGGAAT+AGG | - | chr3_1:90596129-90596148 | None:intergenic | 30.0% |
| ATGAACAAAAAATAGTGGCA+TGG | - | chr3_1:90596245-90596264 | None:intergenic | 30.0% | |
| ! | CTGAAGTATCTAAAGTTGAA+TGG | + | chr3_1:90596340-90596359 | Msa0386790:CDS | 30.0% |
| ! | ACAAGCCTTGTGATTCAATT+TGG | + | chr3_1:90595932-90595951 | Msa0386790:CDS | 35.0% |
| ! | CTTTTGCTACATTTTGCCAA+CGG | - | chr3_1:90596020-90596039 | None:intergenic | 35.0% |
| CAAAATGTAGCAAAAGCAGT+TGG | + | chr3_1:90596024-90596043 | Msa0386790:CDS | 35.0% | |
| CTTCACGTGGATTTGTAATT+TGG | - | chr3_1:90596135-90596154 | None:intergenic | 35.0% | |
| TAGTGGCATGGTACATAATT+TGG | - | chr3_1:90596233-90596252 | None:intergenic | 35.0% | |
| ! | ACAAGGCTTGTGTTTGCTAA+GGG | - | chr3_1:90595923-90595942 | None:intergenic | 40.0% |
| GGAGTCCAAATTGAATCACA+AGG | - | chr3_1:90595940-90595959 | None:intergenic | 40.0% | |
| AATGTAGCAAAAGCAGTTGG+TGG | + | chr3_1:90596027-90596046 | Msa0386790:CDS | 40.0% | |
| !! | AGTTGGTGGTAAATCAGTTG+AGG | + | chr3_1:90596041-90596060 | Msa0386790:CDS | 40.0% |
| GATCTCAAACACATTGAGTC+TGG | + | chr3_1:90596096-90596115 | Msa0386790:CDS | 40.0% | |
| !! | CTAATTTGCTACACTTCACG+TGG | - | chr3_1:90596148-90596167 | None:intergenic | 40.0% |
| CTTATATAGATGCTTGCCTC+AGG | + | chr3_1:90596314-90596333 | Msa0386790:intron | 40.0% | |
| TTAGATACTTCAGAAGCCTG+AGG | - | chr3_1:90596333-90596352 | None:intergenic | 40.0% | |
| AAATCTGATAGGGAGACAGA+TGG | - | chr3_1:90596397-90596416 | None:intergenic | 40.0% | |
| ! | GTGTTTGCTAAGGGAACTTG+AGG | - | chr3_1:90595914-90595933 | None:intergenic | 45.0% |
| ! | CACAAGGCTTGTGTTTGCTA+AGG | - | chr3_1:90595924-90595943 | None:intergenic | 45.0% |
| ! | TACATTTTGCCAACGGTCAG+GGG | - | chr3_1:90596013-90596032 | None:intergenic | 45.0% |
| ! | CTACATTTTGCCAACGGTCA+GGG | - | chr3_1:90596014-90596033 | None:intergenic | 45.0% |
| GAGACACTATGAGCTACTCT+TGG | + | chr3_1:90596071-90596090 | Msa0386790:CDS | 45.0% | |
| ACACTATGAGCTACTCTTGG+AGG | + | chr3_1:90596074-90596093 | Msa0386790:CDS | 45.0% | |
| AGACAGATGGAGGAACAAAC+AGG | - | chr3_1:90596384-90596403 | None:intergenic | 45.0% | |
| ATAAGGATACCCCTGACCGT+TGG | + | chr3_1:90596001-90596020 | Msa0386790:CDS | 50.0% | |
| ! | GCTACATTTTGCCAACGGTC+AGG | - | chr3_1:90596015-90596034 | None:intergenic | 50.0% |
| TCTGATAGGGAGACAGATGG+AGG | - | chr3_1:90596394-90596413 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 90595907 | 90596418 | 90595907 | ID=Msa0386790;Name=Msa0386790 |
| chr3_1 | mRNA | 90595907 | 90596418 | 90595907 | ID=Msa0386790-mRNA-1;Parent=Msa0386790;Name=Msa0386790-mRNA-1;_AED=0.16;_eAED=0.16;_QI=0|0|0.5|1|0|0|2|50|95 |
| chr3_1 | exon | 90595907 | 90596148 | 90595907 | ID=Msa0386790-mRNA-1:exon:25077;Parent=Msa0386790-mRNA-1 |
| chr3_1 | exon | 90596323 | 90596418 | 90596323 | ID=Msa0386790-mRNA-1:exon:25078;Parent=Msa0386790-mRNA-1 |
| chr3_1 | CDS | 90595907 | 90596148 | 90595907 | ID=Msa0386790-mRNA-1:cds;Parent=Msa0386790-mRNA-1 |
| chr3_1 | CDS | 90596323 | 90596368 | 90596323 | ID=Msa0386790-mRNA-1:cds;Parent=Msa0386790-mRNA-1 |
| chr3_1 | three_prime_UTR | 90596369 | 90596418 | 90596369 | ID=Msa0386790-mRNA-1:three_prime_utr;Parent=Msa0386790-mRNA-1 |
| Gene Sequence |
| Protein sequence |
