Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene73043.t1 | RHN65933.1 | 100 | 127 | 0 | 0 | 1 | 127 | 68 | 194 | 5.80E-66 | 260 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene73043.t1 | Q9SS03 | 44.2 | 120 | 67 | 0 | 7 | 126 | 70 | 189 | 1.6e-24 | 113.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene73043.t1 | A0A396IMV9 | 100.0 | 127 | 0 | 0 | 1 | 127 | 68 | 194 | 4.1e-66 | 260.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050137 | MS.gene73043 | 0.801279 | 9.71E-49 | -1.69E-46 |
| MS.gene051719 | MS.gene73043 | 0.809342 | 1.98E-50 | -1.69E-46 |
| MS.gene052020 | MS.gene73043 | 0.800005 | 1.77E-48 | -1.69E-46 |
| MS.gene053641 | MS.gene73043 | 0.800299 | 1.54E-48 | -1.69E-46 |
| MS.gene05468 | MS.gene73043 | 0.835744 | 1.40E-56 | -1.69E-46 |
| MS.gene054801 | MS.gene73043 | 0.81971 | 1.01E-52 | -1.69E-46 |
| MS.gene055466 | MS.gene73043 | 0.809154 | 2.18E-50 | -1.69E-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene73043.t1 | MTR_3g034030 | 71.429 | 126 | 36 | 0 | 1 | 126 | 59 | 184 | 3.09e-66 | 198 |
| MS.gene73043.t1 | MTR_4g078885 | 71.429 | 126 | 36 | 0 | 1 | 126 | 59 | 184 | 7.11e-66 | 197 |
| MS.gene73043.t1 | MTR_1g056370 | 51.969 | 127 | 59 | 2 | 2 | 126 | 59 | 185 | 6.19e-36 | 122 |
| MS.gene73043.t1 | MTR_1g054525 | 49.167 | 120 | 59 | 2 | 7 | 126 | 74 | 191 | 2.96e-32 | 112 |
| MS.gene73043.t1 | MTR_4g013335 | 43.902 | 123 | 69 | 0 | 4 | 126 | 73 | 195 | 8.26e-31 | 108 |
| MS.gene73043.t1 | MTR_4g013330 | 48.246 | 114 | 59 | 0 | 13 | 126 | 85 | 198 | 1.01e-30 | 108 |
| MS.gene73043.t1 | MTR_4g013350 | 47.863 | 117 | 61 | 0 | 10 | 126 | 80 | 196 | 4.11e-30 | 107 |
| MS.gene73043.t1 | MTR_4g013320 | 47.009 | 117 | 62 | 0 | 10 | 126 | 82 | 198 | 7.02e-30 | 107 |
| MS.gene73043.t1 | MTR_7g070390 | 44.068 | 118 | 66 | 0 | 9 | 126 | 74 | 191 | 9.07e-30 | 106 |
| MS.gene73043.t1 | MTR_4g013325 | 44.444 | 117 | 65 | 0 | 10 | 126 | 82 | 198 | 2.77e-29 | 105 |
| MS.gene73043.t1 | MTR_4g013345 | 47.009 | 117 | 62 | 0 | 10 | 126 | 79 | 195 | 8.43e-29 | 103 |
| MS.gene73043.t1 | MTR_4g013385 | 42.857 | 119 | 68 | 0 | 8 | 126 | 71 | 189 | 1.31e-28 | 103 |
| MS.gene73043.t1 | MTR_0433s0040 | 42.857 | 119 | 68 | 0 | 8 | 126 | 71 | 189 | 1.31e-28 | 103 |
| MS.gene73043.t1 | MTR_7g093850 | 47.788 | 113 | 58 | 1 | 15 | 126 | 81 | 193 | 1.68e-27 | 100 |
| MS.gene73043.t1 | MTR_7g093820 | 46.018 | 113 | 60 | 1 | 15 | 126 | 81 | 193 | 3.11e-27 | 100 |
| MS.gene73043.t1 | MTR_7g093790 | 45.133 | 113 | 61 | 1 | 15 | 126 | 78 | 190 | 1.08e-26 | 98.6 |
| MS.gene73043.t1 | MTR_7g093830 | 46.018 | 113 | 60 | 1 | 15 | 126 | 80 | 192 | 1.40e-26 | 98.2 |
| MS.gene73043.t1 | MTR_4g013310 | 43.478 | 115 | 63 | 1 | 10 | 124 | 82 | 194 | 1.40e-25 | 95.9 |
| MS.gene73043.t1 | MTR_4g073950 | 39.344 | 122 | 74 | 0 | 5 | 126 | 70 | 191 | 2.23e-25 | 95.1 |
| MS.gene73043.t1 | MTR_4g013770 | 38.095 | 126 | 78 | 0 | 1 | 126 | 65 | 190 | 3.02e-25 | 94.7 |
| MS.gene73043.t1 | MTR_4g049550 | 38.261 | 115 | 71 | 0 | 13 | 127 | 64 | 178 | 6.25e-24 | 90.9 |
| MS.gene73043.t1 | MTR_7g093870 | 45.299 | 117 | 57 | 3 | 15 | 126 | 78 | 192 | 1.85e-23 | 90.9 |
| MS.gene73043.t1 | MTR_3g105630 | 37.931 | 116 | 71 | 1 | 12 | 126 | 73 | 188 | 1.08e-21 | 85.5 |
| MS.gene73043.t1 | MTR_4g122130 | 36.885 | 122 | 77 | 0 | 5 | 126 | 58 | 179 | 1.17e-21 | 85.1 |
| MS.gene73043.t1 | MTR_4g049570 | 37.168 | 113 | 71 | 0 | 15 | 127 | 66 | 178 | 1.31e-21 | 85.1 |
| MS.gene73043.t1 | MTR_4g122110 | 40.179 | 112 | 67 | 0 | 15 | 126 | 68 | 179 | 1.42e-21 | 85.1 |
| MS.gene73043.t1 | MTR_5g096120 | 36.800 | 125 | 77 | 2 | 3 | 126 | 65 | 188 | 8.08e-21 | 83.2 |
| MS.gene73043.t1 | MTR_3g105640 | 37.931 | 116 | 71 | 1 | 12 | 126 | 72 | 187 | 1.10e-20 | 82.8 |
| MS.gene73043.t1 | MTR_4g013355 | 36.752 | 117 | 64 | 1 | 10 | 126 | 72 | 178 | 2.79e-19 | 79.0 |
| MS.gene73043.t1 | MTR_1g046490 | 33.663 | 101 | 66 | 1 | 2 | 102 | 109 | 208 | 1.03e-13 | 65.5 |
| MS.gene73043.t1 | MTR_1g046800 | 35.000 | 100 | 64 | 1 | 3 | 102 | 124 | 222 | 2.81e-13 | 64.3 |
| MS.gene73043.t1 | MTR_1g046500 | 35.000 | 100 | 64 | 1 | 3 | 102 | 124 | 222 | 3.14e-13 | 64.3 |
| MS.gene73043.t1 | MTR_7g021300 | 35.165 | 91 | 56 | 1 | 15 | 102 | 271 | 361 | 1.41e-11 | 60.5 |
| MS.gene73043.t1 | MTR_1g115510 | 32.967 | 91 | 58 | 1 | 15 | 102 | 235 | 325 | 5.47e-11 | 58.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene73043.t1 | AT1G65870 | 44.167 | 120 | 67 | 0 | 7 | 126 | 70 | 189 | 1.20e-32 | 113 |
| MS.gene73043.t1 | AT1G22900 | 46.087 | 115 | 60 | 1 | 12 | 126 | 81 | 193 | 1.98e-32 | 113 |
| MS.gene73043.t1 | AT5G42500 | 47.321 | 112 | 57 | 1 | 15 | 126 | 76 | 185 | 9.07e-32 | 111 |
| MS.gene73043.t1 | AT5G42510 | 46.429 | 112 | 58 | 1 | 15 | 126 | 73 | 182 | 3.18e-31 | 109 |
| MS.gene73043.t1 | AT3G58090 | 45.794 | 107 | 58 | 0 | 20 | 126 | 165 | 271 | 4.51e-29 | 106 |
| MS.gene73043.t1 | AT2G21100 | 43.750 | 112 | 63 | 0 | 15 | 126 | 76 | 187 | 4.23e-27 | 99.4 |
| MS.gene73043.t1 | AT2G21100 | 43.750 | 112 | 63 | 0 | 15 | 126 | 76 | 187 | 4.23e-27 | 99.4 |
| MS.gene73043.t1 | AT1G58170 | 40.157 | 127 | 74 | 1 | 2 | 126 | 58 | 184 | 2.37e-26 | 97.4 |
| MS.gene73043.t1 | AT2G21110 | 41.071 | 112 | 66 | 0 | 15 | 126 | 74 | 185 | 1.34e-23 | 90.5 |
| MS.gene73043.t1 | AT3G13660 | 38.462 | 117 | 72 | 0 | 10 | 126 | 8 | 124 | 6.92e-23 | 87.0 |
| MS.gene73043.t1 | AT3G13650 | 34.959 | 123 | 80 | 0 | 4 | 126 | 63 | 185 | 8.22e-23 | 88.6 |
| MS.gene73043.t1 | AT4G38700 | 40.171 | 117 | 66 | 2 | 14 | 126 | 73 | 189 | 4.95e-22 | 86.7 |
| MS.gene73043.t1 | AT5G49040 | 44.565 | 92 | 51 | 0 | 15 | 106 | 79 | 170 | 5.34e-22 | 86.3 |
| MS.gene73043.t1 | AT5G49030 | 44.565 | 92 | 51 | 0 | 15 | 106 | 79 | 170 | 1.64e-21 | 89.0 |
| MS.gene73043.t1 | AT1G55210 | 38.710 | 124 | 69 | 2 | 4 | 120 | 64 | 187 | 1.95e-21 | 84.7 |
| MS.gene73043.t1 | AT1G55210 | 38.710 | 124 | 69 | 2 | 4 | 120 | 64 | 187 | 1.95e-21 | 84.7 |
| MS.gene73043.t1 | AT3G13662 | 45.055 | 91 | 50 | 0 | 16 | 106 | 74 | 164 | 5.11e-21 | 83.6 |
Find 18 sgRNAs with CRISPR-Local
Find 26 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACCTCTATTGTTGGTGGAAC+TGG | 0.311507 | 3.2:+11654523 | MS.gene73043:CDS |
| CAAAATGTAGCTAACGGATT+TGG | 0.328765 | 3.2:+11654292 | MS.gene73043:CDS |
| AGAGTGTATGTTGATAAATA+TGG | 0.395053 | 3.2:+11654423 | MS.gene73043:CDS |
| GGAAGAGCTCAAGGGATGTT+TGG | 0.401132 | 3.2:+11654376 | MS.gene73043:CDS |
| TTTAATGAAGGGAAATATGC+TGG | 0.436425 | 3.2:+11654448 | MS.gene73043:CDS |
| ACCAGTTCCACCAACAATAG+AGG | 0.436428 | 3.2:-11654524 | None:intergenic |
| TACTCAACAACATAATGTTC+AGG | 0.445016 | 3.2:-11654604 | None:intergenic |
| GGAAGCACTCTTAGTATGTT+GGG | 0.448120 | 3.2:+11654469 | MS.gene73043:CDS |
| AATAGAGAAACCTCTATTGT+TGG | 0.467959 | 3.2:+11654514 | MS.gene73043:CDS |
| TGGAAGCACTCTTAGTATGT+TGG | 0.496447 | 3.2:+11654468 | MS.gene73043:CDS |
| AGAGAAACCTCTATTGTTGG+TGG | 0.516365 | 3.2:+11654517 | MS.gene73043:CDS |
| AAACACATTGGAAGAGCTCA+AGG | 0.544060 | 3.2:+11654367 | MS.gene73043:CDS |
| GCACTCTTAGTATGTTGGGA+AGG | 0.604095 | 3.2:+11654473 | MS.gene73043:CDS |
| GAATTAAGTTCAAAACACAT+TGG | 0.623480 | 3.2:+11654355 | MS.gene73043:CDS |
| ACACCACAAAATGTAGCTAA+CGG | 0.641232 | 3.2:+11654286 | MS.gene73043:CDS |
| ATGGATGATGCAATGACTGA+AGG | 0.670753 | 3.2:+11654328 | MS.gene73043:CDS |
| AACACATTGGAAGAGCTCAA+GGG | 0.674782 | 3.2:+11654368 | MS.gene73043:CDS |
| TGTGTCAATGATTTGTAACA+TGG | 0.675813 | 3.2:-11654266 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATAAATATGGTTTTTAATGA+AGG | + | chr3.2:11654436-11654455 | MS.gene73043:CDS | 15.0% |
| !!! | TAAATATGGTTTTTAATGAA+GGG | + | chr3.2:11654437-11654456 | MS.gene73043:CDS | 15.0% |
| ! | GAATTAAGTTCAAAACACAT+TGG | + | chr3.2:11654355-11654374 | MS.gene73043:CDS | 25.0% |
| !! | AGAGTGTATGTTGATAAATA+TGG | + | chr3.2:11654423-11654442 | MS.gene73043:CDS | 25.0% |
| !!! | ATGTGTTTTGAACTTAATTC+TGG | - | chr3.2:11654355-11654374 | None:intergenic | 25.0% |
| !!! | ATTTGGTTCAACTTTTATGA+TGG | + | chr3.2:11654309-11654328 | MS.gene73043:CDS | 25.0% |
| !!! | GTATTTTTAGATTTGCTAGA+GGG | + | chr3.2:11654545-11654564 | MS.gene73043:CDS | 25.0% |
| !!! | TCTCTATTTTGTTTGGTAAT+AGG | - | chr3.2:11654502-11654521 | None:intergenic | 25.0% |
| AATAGAGAAACCTCTATTGT+TGG | + | chr3.2:11654514-11654533 | MS.gene73043:CDS | 30.0% | |
| TACTCAACAACATAATGTTC+AGG | - | chr3.2:11654607-11654626 | None:intergenic | 30.0% | |
| TTTAATGAAGGGAAATATGC+TGG | + | chr3.2:11654448-11654467 | MS.gene73043:CDS | 30.0% | |
| ! | AGAGGTTTCTCTATTTTGTT+TGG | - | chr3.2:11654509-11654528 | None:intergenic | 30.0% |
| !!! | GGTATTTTTAGATTTGCTAG+AGG | + | chr3.2:11654544-11654563 | MS.gene73043:CDS | 30.0% |
| ACACCACAAAATGTAGCTAA+CGG | + | chr3.2:11654286-11654305 | MS.gene73043:CDS | 35.0% | |
| ! | AATCCGTTAGCTACATTTTG+TGG | - | chr3.2:11654292-11654311 | None:intergenic | 35.0% |
| !! | CAAAATGTAGCTAACGGATT+TGG | + | chr3.2:11654292-11654311 | MS.gene73043:CDS | 35.0% |
| AAACACATTGGAAGAGCTCA+AGG | + | chr3.2:11654367-11654386 | MS.gene73043:CDS | 40.0% | |
| AACACATTGGAAGAGCTCAA+GGG | + | chr3.2:11654368-11654387 | MS.gene73043:CDS | 40.0% | |
| AGAGAAACCTCTATTGTTGG+TGG | + | chr3.2:11654517-11654536 | MS.gene73043:CDS | 40.0% | |
| ATGGATGATGCAATGACTGA+AGG | + | chr3.2:11654328-11654347 | MS.gene73043:CDS | 40.0% | |
| !! | GGAAGCACTCTTAGTATGTT+GGG | + | chr3.2:11654469-11654488 | MS.gene73043:CDS | 40.0% |
| !! | TGGAAGCACTCTTAGTATGT+TGG | + | chr3.2:11654468-11654487 | MS.gene73043:CDS | 40.0% |
| ACCAGTTCCACCAACAATAG+AGG | - | chr3.2:11654527-11654546 | None:intergenic | 45.0% | |
| GCACTCTTAGTATGTTGGGA+AGG | + | chr3.2:11654473-11654492 | MS.gene73043:CDS | 45.0% | |
| ! | ACCTCTATTGTTGGTGGAAC+TGG | + | chr3.2:11654523-11654542 | MS.gene73043:CDS | 45.0% |
| GGAAGAGCTCAAGGGATGTT+TGG | + | chr3.2:11654376-11654395 | MS.gene73043:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.2 | gene | 11654268 | 11654651 | 11654268 | ID=MS.gene73043 |
| chr3.2 | mRNA | 11654268 | 11654651 | 11654268 | ID=MS.gene73043.t1;Parent=MS.gene73043 |
| chr3.2 | exon | 11654268 | 11654651 | 11654268 | ID=MS.gene73043.t1.exon1;Parent=MS.gene73043.t1 |
| chr3.2 | CDS | 11654268 | 11654651 | 11654268 | ID=cds.MS.gene73043.t1;Parent=MS.gene73043.t1 |
| Gene Sequence |
| Protein sequence |
