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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0180004407.01.T01 | XP_003590872.2 | 71.963 | 107 | 27 | 2 | 1 | 106 | 1 | 105 | 1.58E-38 | 140 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0180004407.01.T01 | G7I5K2 | 71.963 | 107 | 27 | 2 | 1 | 106 | 1 | 105 | 7.53e-39 | 140 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsG0180000822.01 | MsG0180004407.01 | 0.808533 | 2.956475e-50 | 1.694620e-47 |
| MsG0180004407.01 | MsG0380014573.01 | 0.811090 | 8.332039e-51 | 5.110485e-48 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0180004407.01.T01 | MTR_1g079180 | 71.963 | 107 | 27 | 2 | 1 | 106 | 1 | 105 | 1.91e-42 | 140 |
| MsG0180004407.01.T01 | MTR_1g079200 | 68.224 | 107 | 27 | 3 | 1 | 106 | 1 | 101 | 9.26e-37 | 126 |
| MsG0180004407.01.T01 | MTR_1g079370 | 59.677 | 124 | 32 | 4 | 1 | 117 | 1 | 113 | 4.37e-36 | 124 |
| MsG0180004407.01.T01 | MTR_1g079850 | 62.832 | 113 | 28 | 4 | 1 | 106 | 1 | 106 | 1.07e-33 | 119 |
| MsG0180004407.01.T01 | MTR_1g079250 | 60.377 | 106 | 31 | 2 | 1 | 100 | 1 | 101 | 7.27e-32 | 114 |
| MsG0180004407.01.T01 | MTR_1g100597 | 60.177 | 113 | 27 | 4 | 1 | 106 | 1 | 102 | 1.45e-31 | 113 |
| MsG0180004407.01.T01 | MTR_3g006850 | 61.538 | 104 | 37 | 2 | 4 | 106 | 17 | 118 | 1.34e-30 | 111 |
| MsG0180004407.01.T01 | MTR_1g079460 | 58.879 | 107 | 41 | 2 | 1 | 106 | 1 | 105 | 1.54e-29 | 107 |
| MsG0180004407.01.T01 | MTR_1g079230 | 58.879 | 107 | 38 | 3 | 1 | 106 | 1 | 102 | 1.81e-29 | 107 |
| MsG0180004407.01.T01 | MTR_2g042540 | 56.637 | 113 | 39 | 3 | 1 | 108 | 1 | 108 | 2.12e-28 | 101 |
| MsG0180004407.01.T01 | MTR_1g079350 | 56.481 | 108 | 44 | 2 | 1 | 107 | 1 | 106 | 7.10e-28 | 102 |
| MsG0180004407.01.T01 | MTR_1g079260 | 57.944 | 107 | 39 | 3 | 1 | 106 | 1 | 102 | 9.48e-28 | 103 |
| MsG0180004407.01.T01 | MTR_1g079350 | 56.481 | 108 | 44 | 2 | 1 | 107 | 1 | 106 | 1.46e-27 | 102 |
| MsG0180004407.01.T01 | MTR_1g079380 | 52.419 | 124 | 41 | 4 | 1 | 117 | 1 | 113 | 1.14e-26 | 100 |
| MsG0180004407.01.T01 | MTR_3g450990 | 56.731 | 104 | 37 | 3 | 4 | 106 | 10 | 106 | 1.63e-24 | 95.1 |
| MsG0180004407.01.T01 | MTR_3g452600 | 54.808 | 104 | 39 | 3 | 4 | 106 | 10 | 106 | 5.64e-23 | 90.9 |
| MsG0180004407.01.T01 | MTR_2g079100 | 54.369 | 103 | 35 | 4 | 5 | 106 | 10 | 101 | 5.92e-23 | 90.9 |
| MsG0180004407.01.T01 | MTR_1g079340 | 45.588 | 136 | 53 | 4 | 1 | 125 | 40 | 165 | 1.19e-22 | 90.9 |
| MsG0180004407.01.T01 | MTR_1g026510 | 50.000 | 112 | 43 | 3 | 1 | 106 | 1 | 105 | 1.46e-22 | 90.1 |
| MsG0180004407.01.T01 | MTR_1g100613 | 54.255 | 94 | 25 | 4 | 20 | 106 | 5 | 87 | 2.70e-21 | 85.9 |
| MsG0180004407.01.T01 | MTR_7g096300 | 52.778 | 108 | 35 | 5 | 1 | 100 | 1 | 100 | 1.15e-18 | 80.9 |
| MsG0180004407.01.T01 | MTR_1g079400 | 47.059 | 102 | 46 | 3 | 5 | 101 | 13 | 111 | 2.55e-18 | 78.6 |
| MsG0180004407.01.T01 | MTR_1g078460 | 52.632 | 95 | 31 | 3 | 1 | 89 | 64 | 150 | 4.09e-18 | 75.5 |
| MsG0180004407.01.T01 | MTR_1g079410 | 45.631 | 103 | 46 | 4 | 5 | 101 | 9 | 107 | 2.44e-16 | 73.2 |
| MsG0180004407.01.T01 | MTR_1g079140 | 42.520 | 127 | 51 | 6 | 3 | 118 | 12 | 127 | 4.14e-14 | 67.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 34 sgRNAs with CRISPR-Local
Find 40 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAGATCTCTTGCCATTGATT+GGG | 0.325854 | 1:-77558446 | MsG0180004407.01.T01:CDS |
| CTAGATCTCTTGCCATTGAT+TGG | 0.334447 | 1:-77558447 | MsG0180004407.01.T01:CDS |
| TGATCATTGTCGATGATGAT+AGG | 0.340168 | 1:+77558627 | None:intergenic |
| CCGCCGATTCCGACGCCGTC+TGG | 0.340798 | 1:-77558760 | MsG0180004407.01.T01:CDS |
| GACAGAGTTTGAGGAATTGC+CGG | 0.379323 | 1:-77558865 | MsG0180004407.01.T01:CDS |
| GGATTTCTATGCCTAATTCC+AGG | 0.380639 | 1:-77558399 | MsG0180004407.01.T01:CDS |
| TGAAATTCAGAGCTTTCAAT+TGG | 0.394466 | 1:-77558505 | MsG0180004407.01.T01:intron |
| CAAAAGAATGACAGAGTTTG+AGG | 0.409289 | 1:-77558874 | MsG0180004407.01.T01:exon |
| ATCTAAGCTAACCTGGAATT+AGG | 0.417358 | 1:+77558388 | None:intergenic |
| ATGATCGACGCTATTGGAAC+TGG | 0.435698 | 1:-77558420 | MsG0180004407.01.T01:CDS |
| ATTCCAGACGGCGTCGGAAT+CGG | 0.451722 | 1:+77558757 | None:intergenic |
| ATGACGGAAATGAAACCTTC+CGG | 0.471950 | 1:+77558846 | None:intergenic |
| GGGGTGATGATCGACGCTAT+TGG | 0.479440 | 1:-77558426 | MsG0180004407.01.T01:CDS |
| CCCTAATATCTAAGCTAACC+TGG | 0.480620 | 1:+77558381 | None:intergenic |
| GAGAGTCTGCCGGCGTCAGC+CGG | 0.494209 | 1:+77558807 | None:intergenic |
| GAAAGGAAAGCCTTGGAAAA+CGG | 0.494556 | 1:+77558785 | None:intergenic |
| GAAGAAAGAGTGTGAACTGA+AGG | 0.508261 | 1:+77558919 | None:intergenic |
| TCGATCATCACCCCAATCAA+TGG | 0.519099 | 1:+77558435 | None:intergenic |
| GGCGGCAGAAAGGAAAGCCT+TGG | 0.522685 | 1:+77558778 | None:intergenic |
| CGTCGGAATCGGCGGCAGAA+AGG | 0.549047 | 1:+77558768 | None:intergenic |
| TTGGAAAACGGAGAGTCTGC+CGG | 0.552866 | 1:+77558797 | None:intergenic |
| GATCATTGTCGATGATGATA+GGG | 0.558501 | 1:+77558628 | None:intergenic |
| AGATCTCTTGCCATTGATTG+GGG | 0.560108 | 1:-77558445 | MsG0180004407.01.T01:CDS |
| TTTCAATTGGATAGAAAGAG+TGG | 0.567809 | 1:-77558492 | MsG0180004407.01.T01:CDS |
| GTAGGAGCGTTGGCAAGTGA+AGG | 0.572663 | 1:+77558684 | None:intergenic |
| CCAGACGGCGTCGGAATCGG+CGG | 0.580387 | 1:+77558760 | None:intergenic |
| CGCACAACTCCGGCTGACGC+CGG | 0.587266 | 1:-77558816 | MsG0180004407.01.T01:CDS |
| CATTCTCTCTCGCACAACTC+CGG | 0.587355 | 1:-77558826 | MsG0180004407.01.T01:CDS |
| CATCATCGACAATGATCAGA+AGG | 0.590425 | 1:-77558622 | MsG0180004407.01.T01:intron |
| GAGTTTGAGGAATTGCCGGA+AGG | 0.634691 | 1:-77558861 | MsG0180004407.01.T01:CDS |
| AAGGAGAAATTGATTCCAGA+CGG | 0.638209 | 1:+77558745 | None:intergenic |
| AAATTGATTCCAGACGGCGT+CGG | 0.652221 | 1:+77558751 | None:intergenic |
| TCGATGAAATGAGAATCAGA+AGG | 0.676066 | 1:+77558726 | None:intergenic |
| AGTTGTGCGAGAGAGAATGA+CGG | 0.683855 | 1:+77558830 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATATCTCTTATATTAACTT+TGG | - | Chr1:77558740-77558759 | MsG0180004407.01.T01:CDS | 15.0% |
| !!! | TATTCTTCTCTTTTTTGTAA+CGG | - | Chr1:77558715-77558734 | MsG0180004407.01.T01:CDS | 20.0% |
| TGAAATTCAGAGCTTTCAAT+TGG | - | Chr1:77558809-77558828 | MsG0180004407.01.T01:CDS | 30.0% | |
| TTTCAATTGGATAGAAAGAG+TGG | - | Chr1:77558822-77558841 | MsG0180004407.01.T01:CDS | 30.0% | |
| ! | AAGCTATTGATAATAAGCCT+TGG | - | Chr1:77558780-77558799 | MsG0180004407.01.T01:CDS | 30.0% |
| CAAAAGAATGACAGAGTTTG+AGG | - | Chr1:77558440-77558459 | MsG0180004407.01.T01:CDS | 35.0% | |
| GATCATTGTCGATGATGATA+GGG | + | Chr1:77558689-77558708 | None:intergenic | 35.0% | |
| TCGATGAAATGAGAATCAGA+AGG | + | Chr1:77558591-77558610 | None:intergenic | 35.0% | |
| TCTGAATTTCAACACATCCA+AGG | + | Chr1:77558800-77558819 | None:intergenic | 35.0% | |
| TGATCATTGTCGATGATGAT+AGG | + | Chr1:77558690-77558709 | None:intergenic | 35.0% | |
| ! | AAGGAGAAATTGATTCCAGA+CGG | + | Chr1:77558572-77558591 | None:intergenic | 35.0% |
| ! | TAGATCTCTTGCCATTGATT+GGG | - | Chr1:77558868-77558887 | MsG0180004407.01.T01:CDS | 35.0% |
| !!! | AGATACAGAGCTTTTTTGGT+AGG | + | Chr1:77558651-77558670 | None:intergenic | 35.0% |
| !!! | AGCAAGATACAGAGCTTTTT+TGG | + | Chr1:77558655-77558674 | None:intergenic | 35.0% |
| CATCATCGACAATGATCAGA+AGG | - | Chr1:77558692-77558711 | MsG0180004407.01.T01:CDS | 40.0% | |
| CTAGATCTCTTGCCATTGAT+TGG | - | Chr1:77558867-77558886 | MsG0180004407.01.T01:CDS | 40.0% | |
| GAAAGGAAAGCCTTGGAAAA+CGG | + | Chr1:77558532-77558551 | None:intergenic | 40.0% | |
| GGATTTCTATGCCTAATTCC+AGG | - | Chr1:77558915-77558934 | MsG0180004407.01.T01:five_prime_UTR | 40.0% | |
| ! | AGATCTCTTGCCATTGATTG+GGG | - | Chr1:77558869-77558888 | MsG0180004407.01.T01:CDS | 40.0% |
| ! | ATGACGGAAATGAAACCTTC+CGG | + | Chr1:77558471-77558490 | None:intergenic | 40.0% |
| ! | GAAGAAAGAGTGTGAACTGA+AGG | + | Chr1:77558398-77558417 | None:intergenic | 40.0% |
| AGTTGTGCGAGAGAGAATGA+CGG | + | Chr1:77558487-77558506 | None:intergenic | 45.0% | |
| ATGATCGACGCTATTGGAAC+TGG | - | Chr1:77558894-77558913 | MsG0180004407.01.T01:five_prime_UTR | 45.0% | |
| GACAGAGTTTGAGGAATTGC+CGG | - | Chr1:77558449-77558468 | MsG0180004407.01.T01:CDS | 45.0% | |
| TCGATCATCACCCCAATCAA+TGG | + | Chr1:77558882-77558901 | None:intergenic | 45.0% | |
| ! | AAATTGATTCCAGACGGCGT+CGG | + | Chr1:77558566-77558585 | None:intergenic | 45.0% |
| !!! | AGCTTTTTTGGTAGGAGCGT+TGG | + | Chr1:77558643-77558662 | None:intergenic | 45.0% |
| CATTCTCTCTCGCACAACTC+CGG | - | Chr1:77558488-77558507 | MsG0180004407.01.T01:CDS | 50.0% | |
| GAGTTTGAGGAATTGCCGGA+AGG | - | Chr1:77558453-77558472 | MsG0180004407.01.T01:CDS | 50.0% | |
| TTGGAAAACGGAGAGTCTGC+CGG | + | Chr1:77558520-77558539 | None:intergenic | 50.0% | |
| GGGGTGATGATCGACGCTAT+TGG | - | Chr1:77558888-77558907 | MsG0180004407.01.T01:exon | 55.0% | |
| ! | ATTCCAGACGGCGTCGGAAT+CGG | + | Chr1:77558560-77558579 | None:intergenic | 55.0% |
| ! | GGCAGACTCTCCGTTTTCCA+AGG | - | Chr1:77558519-77558538 | MsG0180004407.01.T01:intron | 55.0% |
| !! | GTAGGAGCGTTGGCAAGTGA+AGG | + | Chr1:77558633-77558652 | None:intergenic | 55.0% |
| GGCGGCAGAAAGGAAAGCCT+TGG | + | Chr1:77558539-77558558 | None:intergenic | 60.0% | |
| CGTCGGAATCGGCGGCAGAA+AGG | + | Chr1:77558549-77558568 | None:intergenic | 65.0% | |
| CGCACAACTCCGGCTGACGC+CGG | - | Chr1:77558498-77558517 | MsG0180004407.01.T01:CDS | 70.0% | |
| GAGAGTCTGCCGGCGTCAGC+CGG | + | Chr1:77558510-77558529 | None:intergenic | 70.0% | |
| ! | CCAGACGGCGTCGGAATCGG+CGG | + | Chr1:77558557-77558576 | None:intergenic | 70.0% |
| !! | CCGCCGATTCCGACGCCGTC+TGG | - | Chr1:77558554-77558573 | MsG0180004407.01.T01:intron | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr1 | gene | 77558395 | 77558941 | 77558395 | ID=MsG0180004407.01;Name=MsG0180004407.01 |
| Chr1 | mRNA | 77558395 | 77558941 | 77558395 | ID=MsG0180004407.01.T01;Parent=MsG0180004407.01;Name=MsG0180004407.01.T01;_AED=0.50;_eAED=0.50;_QI=52|1|0.5|1|1|1|2|0|129 |
| Chr1 | exon | 77558395 | 77558517 | 77558395 | ID=MsG0180004407.01.T01:exon:45171;Parent=MsG0180004407.01.T01 |
| Chr1 | exon | 77558623 | 77558941 | 77558623 | ID=MsG0180004407.01.T01:exon:45170;Parent=MsG0180004407.01.T01 |
| Chr1 | five_prime_UTR | 77558890 | 77558941 | 77558890 | ID=MsG0180004407.01.T01:five_prime_utr;Parent=MsG0180004407.01.T01 |
| Chr1 | CDS | 77558623 | 77558889 | 77558623 | ID=MsG0180004407.01.T01:cds;Parent=MsG0180004407.01.T01 |
| Chr1 | CDS | 77558395 | 77558517 | 77558395 | ID=MsG0180004407.01.T01:cds;Parent=MsG0180004407.01.T01 |
| Gene Sequence |
| Protein sequence |
