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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1384390 | XP_041020649.1 | 79.348 | 92 | 18 | 1 | 2 | 93 | 3 | 93 | 5.08e-48 | 159 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1384390 | sp|Q43636|TRXH_RICCO | 78.261 | 92 | 19 | 1 | 2 | 93 | 3 | 93 | 1.07e-48 | 153 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1384390 | A0A2I4DQ33 | 78.261 | 92 | 19 | 1 | 2 | 93 | 3 | 93 | 1.89e-47 | 156 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0220090 | Msa1384390 | 0.803792 | 2.943492e-49 | -8.615850e-47 |
| Msa0384830 | Msa1384390 | 0.900707 | 5.597798e-78 | -8.615850e-47 |
| Msa0479260 | Msa1384390 | 0.900721 | 5.516326e-78 | -8.615850e-47 |
| Msa0299030 | Msa1384390 | 0.812087 | 5.058486e-51 | -8.615850e-47 |
| Msa0873940 | Msa1384390 | 0.805218 | 1.484211e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1384390 | MtrunA17_Chr3g0142051 | 76.087 | 92 | 21 | 1 | 2 | 93 | 3 | 93 | 7.53e-48 | 148 |
| Msa1384390 | MtrunA17_Chr1g0155721 | 73.626 | 91 | 23 | 1 | 2 | 92 | 3 | 92 | 2.31e-46 | 144 |
| Msa1384390 | MtrunA17_Chr5g0404831 | 66.304 | 92 | 30 | 1 | 2 | 93 | 5 | 95 | 1.09e-42 | 135 |
| Msa1384390 | MtrunA17_Chr8g0334481 | 39.773 | 88 | 52 | 1 | 5 | 92 | 26 | 112 | 2.11e-24 | 89.4 |
| Msa1384390 | MtrunA17_Chr5g0415771 | 45.122 | 82 | 44 | 1 | 7 | 88 | 21 | 101 | 3.87e-24 | 88.6 |
| Msa1384390 | MtrunA17_Chr7g0245141 | 40.909 | 88 | 51 | 1 | 5 | 92 | 24 | 110 | 1.37e-23 | 87.4 |
| Msa1384390 | MtrunA17_Chr7g0216481 | 45.349 | 86 | 46 | 1 | 7 | 92 | 28 | 112 | 1.48e-23 | 87.0 |
| Msa1384390 | MtrunA17_Chr8g0393201 | 43.333 | 90 | 50 | 1 | 3 | 92 | 225 | 313 | 2.66e-23 | 90.9 |
| Msa1384390 | MtrunA17_Chr5g0415741 | 40.230 | 87 | 51 | 1 | 2 | 88 | 15 | 100 | 2.07e-22 | 84.0 |
| Msa1384390 | MtrunA17_Chr5g0415761 | 36.905 | 84 | 52 | 1 | 5 | 88 | 20 | 102 | 9.09e-22 | 82.4 |
| Msa1384390 | MtrunA17_Chr2g0280411 | 46.591 | 88 | 46 | 1 | 4 | 91 | 8 | 94 | 1.10e-21 | 82.0 |
| Msa1384390 | MtrunA17_Chr2g0319291 | 42.857 | 91 | 51 | 1 | 3 | 93 | 8 | 97 | 5.20e-19 | 75.1 |
| Msa1384390 | MtrunA17_Chr4g0042051 | 42.697 | 89 | 50 | 1 | 3 | 91 | 8 | 95 | 1.58e-18 | 73.9 |
| Msa1384390 | MtrunA17_Chr4g0052481 | 39.080 | 87 | 50 | 2 | 8 | 92 | 62 | 147 | 7.71e-17 | 70.9 |
| Msa1384390 | MtrunA17_Chr3g0142031 | 90.909 | 33 | 3 | 0 | 61 | 93 | 4 | 36 | 1.49e-15 | 64.3 |
| Msa1384390 | MtrunA17_Chr7g0249461 | 38.889 | 90 | 50 | 2 | 5 | 93 | 79 | 164 | 4.09e-15 | 66.6 |
| Msa1384390 | MtrunA17_Chr1g0201781 | 38.095 | 63 | 38 | 1 | 31 | 92 | 81 | 143 | 9.50e-14 | 62.8 |
| Msa1384390 | MtrunA17_Chr3g0142041 | 86.667 | 30 | 4 | 0 | 1 | 30 | 1 | 30 | 1.50e-12 | 58.2 |
| Msa1384390 | MtrunA17_Chr3g0092051 | 32.609 | 92 | 57 | 2 | 4 | 93 | 86 | 174 | 1.63e-12 | 60.8 |
| Msa1384390 | MtrunA17_Chr3g0125821 | 36.709 | 79 | 45 | 2 | 14 | 91 | 76 | 150 | 2.50e-12 | 59.3 |
| Msa1384390 | MtrunA17_Chr1g0211871 | 37.097 | 62 | 38 | 1 | 31 | 91 | 89 | 150 | 2.84e-11 | 56.6 |
| Msa1384390 | MtrunA17_Chr6g0488561 | 28.571 | 91 | 60 | 2 | 5 | 93 | 75 | 162 | 3.74e-11 | 56.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1384390 | AT3G51030.1 | 70.652 | 92 | 26 | 1 | 2 | 93 | 3 | 93 | 8.87e-46 | 143 |
| Msa1384390 | AT5G42980.1 | 63.441 | 93 | 33 | 1 | 1 | 93 | 1 | 92 | 3.79e-40 | 129 |
| Msa1384390 | AT1G45145.1 | 60.215 | 93 | 36 | 1 | 1 | 93 | 1 | 92 | 3.65e-38 | 124 |
| Msa1384390 | AT1G19730.1 | 55.914 | 93 | 39 | 2 | 2 | 93 | 3 | 94 | 3.85e-31 | 106 |
| Msa1384390 | AT5G39950.1 | 48.352 | 91 | 46 | 1 | 2 | 92 | 22 | 111 | 4.14e-24 | 89.0 |
| Msa1384390 | AT3G08710.2 | 43.182 | 88 | 49 | 1 | 5 | 92 | 23 | 109 | 4.18e-24 | 89.0 |
| Msa1384390 | AT3G08710.3 | 43.182 | 88 | 49 | 1 | 5 | 92 | 23 | 109 | 4.18e-24 | 89.0 |
| Msa1384390 | AT3G08710.1 | 43.182 | 88 | 49 | 1 | 5 | 92 | 23 | 109 | 4.18e-24 | 89.0 |
| Msa1384390 | AT3G56420.1 | 42.857 | 91 | 51 | 1 | 2 | 92 | 37 | 126 | 3.99e-23 | 87.0 |
| Msa1384390 | AT3G56420.2 | 42.857 | 91 | 51 | 1 | 2 | 92 | 37 | 126 | 3.99e-23 | 87.0 |
| Msa1384390 | AT3G56420.3 | 42.857 | 91 | 51 | 1 | 2 | 92 | 37 | 126 | 3.99e-23 | 87.0 |
| Msa1384390 | AT3G17880.2 | 42.697 | 89 | 50 | 1 | 4 | 92 | 262 | 349 | 1.63e-22 | 89.4 |
| Msa1384390 | AT3G17880.1 | 42.697 | 89 | 50 | 1 | 4 | 92 | 269 | 356 | 4.90e-21 | 85.5 |
| Msa1384390 | AT1G11530.1 | 47.126 | 87 | 45 | 1 | 5 | 91 | 2 | 87 | 5.23e-21 | 80.5 |
| Msa1384390 | AT1G69880.1 | 40.698 | 86 | 50 | 1 | 7 | 92 | 39 | 123 | 1.39e-19 | 77.8 |
| Msa1384390 | AT2G40790.2 | 40.449 | 89 | 52 | 1 | 4 | 92 | 39 | 126 | 1.80e-19 | 77.8 |
| Msa1384390 | AT2G40790.1 | 40.449 | 89 | 52 | 1 | 4 | 92 | 39 | 126 | 1.80e-19 | 77.8 |
| Msa1384390 | AT1G59730.1 | 40.659 | 91 | 53 | 1 | 1 | 91 | 17 | 106 | 7.42e-19 | 75.5 |
| Msa1384390 | AT2G35010.2 | 41.111 | 90 | 50 | 2 | 4 | 91 | 83 | 171 | 1.34e-16 | 71.2 |
| Msa1384390 | AT2G35010.1 | 41.111 | 90 | 50 | 2 | 4 | 91 | 83 | 171 | 1.34e-16 | 71.2 |
| Msa1384390 | AT1G31020.1 | 38.043 | 92 | 54 | 2 | 2 | 91 | 46 | 136 | 8.82e-16 | 68.2 |
| Msa1384390 | AT1G43560.1 | 37.500 | 64 | 39 | 1 | 31 | 93 | 79 | 142 | 6.33e-14 | 63.5 |
| Msa1384390 | AT5G16400.1 | 43.077 | 65 | 36 | 1 | 30 | 93 | 99 | 163 | 7.69e-14 | 63.9 |
| Msa1384390 | AT3G02730.1 | 44.615 | 65 | 35 | 1 | 30 | 93 | 89 | 153 | 2.04e-13 | 62.4 |
| Msa1384390 | AT1G76760.1 | 37.097 | 62 | 38 | 1 | 31 | 91 | 84 | 145 | 2.56e-13 | 62.0 |
| Msa1384390 | AT4G26160.1 | 30.120 | 83 | 55 | 1 | 7 | 89 | 95 | 174 | 1.20e-11 | 58.5 |
Find 24 sgRNAs with CRISPR-Local
Find 41 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGTTGGAGTCATTTCCCTTC+TGG | 0.238843 | tig0020661:+4060 | None:intergenic |
| TAGTTGATCTTACTGCTTCT+TGG | 0.265306 | tig0020661:-3863 | Msa1384390:CDS |
| ATTCATCCACGTCAACCTTA+AGG | 0.389106 | tig0020661:+3772 | None:intergenic |
| GCCAGATGTCACCTTCCTTA+AGG | 0.403432 | tig0020661:-3787 | Msa1384390:CDS |
| GCTTTCCTTCTTTCAAGAAC+AGG | 0.406276 | tig0020661:+3563 | None:intergenic |
| ACATTCCTGTTCTTGAAAGA+AGG | 0.465257 | tig0020661:-3568 | Msa1384390:CDS |
| GGATTTAACCAACAGTTTGT+TGG | 0.485902 | tig0020661:+4043 | None:intergenic |
| ACCTTAAGGAAGGTGACATC+TGG | 0.488781 | tig0020661:+3786 | None:intergenic |
| AAATCCACAGTGTTGAGGCT+TGG | 0.494177 | tig0020661:-4094 | Msa1384390:CDS |
| TTCAGACTGTTGCTGAGGAG+TGG | 0.502035 | tig0020661:-3609 | Msa1384390:intron |
| TCAGACTGTTGCTGAGGAGT+GGG | 0.502412 | tig0020661:-3608 | Msa1384390:intron |
| GATCTTACTGCTTCTTGGTG+TGG | 0.514931 | tig0020661:-3858 | Msa1384390:CDS |
| CACCTTCCTTAAGGTTGACG+TGG | 0.565554 | tig0020661:-3778 | Msa1384390:CDS |
| ATTTCTTCAGACTGTTGCTG+AGG | 0.578897 | tig0020661:-3614 | Msa1384390:intron |
| GATTGAAATCCACAGTGTTG+AGG | 0.593831 | tig0020661:-4099 | Msa1384390:CDS |
| AAATGACTCCAACAAACTGT+TGG | 0.608754 | tig0020661:-4051 | Msa1384390:intron |
| TTGGAACGAACAAATCCAGA+AGG | 0.609233 | tig0020661:-4075 | Msa1384390:CDS |
| TCGCAGAGTTGGCTCAAAAG+CGG | 0.612847 | tig0020661:-3809 | Msa1384390:CDS |
| AATGGGGCAATGAAACGGCA+TGG | 0.612943 | tig0020661:+3834 | None:intergenic |
| TCTTTCAAGAACAGGAATGT+CGG | 0.617427 | tig0020661:+3571 | None:intergenic |
| CAAGAACAGGAATGTCGGCA+TGG | 0.627664 | tig0020661:+3576 | None:intergenic |
| ATCCACGTCAACCTTAAGGA+AGG | 0.640907 | tig0020661:+3776 | None:intergenic |
| CGTTCCAAGCCTCAACACTG+TGG | 0.688562 | tig0020661:+4090 | None:intergenic |
| TGGAACGAACAAATCCAGAA+GGG | 0.692449 | tig0020661:-4074 | Msa1384390:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAATTAGGGTAATTAATTAA+AGG | + | tig0020661:4050-4069 | None:intergenic | 15.0% |
| !! | TCTTAAACACATACAAAATA+TGG | + | tig0020661:3720-3739 | None:intergenic | 20.0% |
| ! | CAAAGATTTAACATAAGGAT+AGG | + | tig0020661:3674-3693 | None:intergenic | 25.0% |
| ! | AAGGTCAAAGATTTAACATA+AGG | + | tig0020661:3679-3698 | None:intergenic | 25.0% |
| ! | GCAGTTAAAAATTCTAACAA+AGG | + | tig0020661:3698-3717 | None:intergenic | 25.0% |
| ! | AAGACTGTTATTGAAGATTA+TGG | - | tig0020661:3736-3755 | Msa1384390:intron | 25.0% |
| TAAGGATAGGAAATATGAGA+AGG | + | tig0020661:3661-3680 | None:intergenic | 30.0% | |
| TACGTGACATGACATTATTA+TGG | - | tig0020661:3964-3983 | Msa1384390:intron | 30.0% | |
| GTTCTTCTAGATTAATCTTC+AGG | + | tig0020661:4005-4024 | None:intergenic | 30.0% | |
| AAATGACTCCAACAAACTGT+TGG | - | tig0020661:3629-3648 | Msa1384390:intron | 35.0% | |
| GGATTTAACCAACAGTTTGT+TGG | + | tig0020661:3640-3659 | None:intergenic | 35.0% | |
| ATTGAAGATTATGGCATCGT+TGG | - | tig0020661:3745-3764 | Msa1384390:intron | 35.0% | |
| TAGTTGATCTTACTGCTTCT+TGG | - | tig0020661:3817-3836 | Msa1384390:CDS | 35.0% | |
| GCAACAGTCTGAAGAAATTA+GGG | + | tig0020661:4064-4083 | None:intergenic | 35.0% | |
| AGCAACAGTCTGAAGAAATT+AGG | + | tig0020661:4065-4084 | None:intergenic | 35.0% | |
| TCTTTCAAGAACAGGAATGT+CGG | + | tig0020661:4112-4131 | None:intergenic | 35.0% | |
| ACATTCCTGTTCTTGAAAGA+AGG | - | tig0020661:4112-4131 | Msa1384390:CDS | 35.0% | |
| GATTGAAATCCACAGTGTTG+AGG | - | tig0020661:3581-3600 | Msa1384390:CDS | 40.0% | |
| TTGGAACGAACAAATCCAGA+AGG | - | tig0020661:3605-3624 | Msa1384390:CDS | 40.0% | |
| TGGAACGAACAAATCCAGAA+GGG | - | tig0020661:3606-3625 | Msa1384390:CDS | 40.0% | |
| CGAAAAATGGGGCAATGAAA+CGG | + | tig0020661:3854-3873 | None:intergenic | 40.0% | |
| ATTCATCCACGTCAACCTTA+AGG | + | tig0020661:3911-3930 | None:intergenic | 40.0% | |
| ATTTCTTCAGACTGTTGCTG+AGG | - | tig0020661:4066-4085 | Msa1384390:CDS | 40.0% | |
| GCTTTCCTTCTTTCAAGAAC+AGG | + | tig0020661:4120-4139 | None:intergenic | 40.0% | |
| ! | AAATCCACAGTGTTGAGGCT+TGG | - | tig0020661:3586-3605 | Msa1384390:CDS | 45.0% |
| TGTTGGAGTCATTTCCCTTC+TGG | + | tig0020661:3623-3642 | None:intergenic | 45.0% | |
| GATCTTACTGCTTCTTGGTG+TGG | - | tig0020661:3822-3841 | Msa1384390:CDS | 45.0% | |
| AGCCAACTCTGCGAAAAATG+GGG | + | tig0020661:3865-3884 | None:intergenic | 45.0% | |
| GAGCCAACTCTGCGAAAAAT+GGG | + | tig0020661:3866-3885 | None:intergenic | 45.0% | |
| TGAGCCAACTCTGCGAAAAA+TGG | + | tig0020661:3867-3886 | None:intergenic | 45.0% | |
| ACCTTAAGGAAGGTGACATC+TGG | + | tig0020661:3897-3916 | None:intergenic | 45.0% | |
| ATCCACGTCAACCTTAAGGA+AGG | + | tig0020661:3907-3926 | None:intergenic | 45.0% | |
| AATGGGGCAATGAAACGGCA+TGG | + | tig0020661:3849-3868 | None:intergenic | 50.0% | |
| !! | TGCCCCATTTTTCGCAGAGT+TGG | - | tig0020661:3860-3879 | Msa1384390:CDS | 50.0% |
| ! | TCGCAGAGTTGGCTCAAAAG+CGG | - | tig0020661:3871-3890 | Msa1384390:intron | 50.0% |
| GCCAGATGTCACCTTCCTTA+AGG | - | tig0020661:3893-3912 | Msa1384390:intron | 50.0% | |
| CACCTTCCTTAAGGTTGACG+TGG | - | tig0020661:3902-3921 | Msa1384390:intron | 50.0% | |
| TTCAGACTGTTGCTGAGGAG+TGG | - | tig0020661:4071-4090 | Msa1384390:CDS | 50.0% | |
| TCAGACTGTTGCTGAGGAGT+GGG | - | tig0020661:4072-4091 | Msa1384390:CDS | 50.0% | |
| CAAGAACAGGAATGTCGGCA+TGG | + | tig0020661:4107-4126 | None:intergenic | 50.0% | |
| CGTTCCAAGCCTCAACACTG+TGG | + | tig0020661:3593-3612 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0020661 | gene | 3561 | 4141 | 3561 | ID=Msa1384390;Name=Msa1384390 |
| tig0020661 | mRNA | 3561 | 4141 | 3561 | ID=Msa1384390-mRNA-1;Parent=Msa1384390;Name=Msa1384390-mRNA-1;_AED=0.39;_eAED=0.39;_QI=0|0|0|1|1|1|3|0|93 |
| tig0020661 | exon | 4052 | 4141 | 4052 | ID=Msa1384390-mRNA-1:exon:9105;Parent=Msa1384390-mRNA-1 |
| tig0020661 | exon | 3767 | 3889 | 3767 | ID=Msa1384390-mRNA-1:exon:9104;Parent=Msa1384390-mRNA-1 |
| tig0020661 | exon | 3561 | 3626 | 3561 | ID=Msa1384390-mRNA-1:exon:9103;Parent=Msa1384390-mRNA-1 |
| tig0020661 | CDS | 4052 | 4141 | 4052 | ID=Msa1384390-mRNA-1:cds;Parent=Msa1384390-mRNA-1 |
| tig0020661 | CDS | 3767 | 3889 | 3767 | ID=Msa1384390-mRNA-1:cds;Parent=Msa1384390-mRNA-1 |
| tig0020661 | CDS | 3561 | 3626 | 3561 | ID=Msa1384390-mRNA-1:cds;Parent=Msa1384390-mRNA-1 |
| Gene Sequence |
| Protein sequence |
