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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0454440 | XP_003600246.2 | 95.833 | 192 | 8 | 0 | 1 | 192 | 1 | 192 | 1.05e-115 | 360 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0454440 | G7J1I4 | 95.833 | 192 | 8 | 0 | 1 | 192 | 1 | 192 | 5.02e-116 | 360 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0454440 | Msa0480980 | 0.815065 | 1.118811e-51 | -8.615850e-47 |
| Msa0454440 | Msa0532330 | 0.804820 | 1.797668e-49 | -8.615850e-47 |
| Msa0454440 | Msa0581760 | 0.818697 | 1.712035e-52 | -8.615850e-47 |
| Msa0454440 | Msa0638320 | 0.801013 | 1.100094e-48 | -8.615850e-47 |
| Msa0454440 | Msa0649970 | 0.806538 | 7.837469e-50 | -8.615850e-47 |
| Msa0454440 | Msa0653510 | 0.807723 | 4.398296e-50 | -8.615850e-47 |
| Msa0454440 | Msa0756630 | -0.804025 | 2.633462e-49 | -8.615850e-47 |
| Msa0454440 | Msa0850960 | 0.800831 | 1.198557e-48 | -8.615850e-47 |
| Msa0454440 | Msa1222970 | 0.807857 | 4.117398e-50 | -8.615850e-47 |
| Msa0454440 | Msa1228210 | 0.819649 | 1.039570e-52 | -8.615850e-47 |
| Msa0454440 | Msa1264020 | 0.811004 | 8.697353e-51 | -8.615850e-47 |
| Msa0454440 | Msa1271300 | 0.803891 | 2.808011e-49 | -8.615850e-47 |
| Msa0454440 | Msa1324780 | 0.801784 | 7.646483e-49 | -8.615850e-47 |
| Msa0454440 | Msa1367080 | 0.811438 | 7.002179e-51 | -8.615850e-47 |
| Msa0454440 | Msa1453710 | 0.804497 | 2.100121e-49 | -8.615850e-47 |
| Msa0323080 | Msa0454440 | 0.800728 | 1.257902e-48 | -8.615850e-47 |
| Msa0344830 | Msa0454440 | 0.812659 | 3.792800e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0454440 | MtrunA17_Chr3g0101011 | 95.833 | 192 | 8 | 0 | 1 | 192 | 1 | 192 | 9.66e-120 | 360 |
| Msa0454440 | MtrunA17_Chr3g0101351 | 59.067 | 193 | 71 | 4 | 1 | 192 | 5 | 190 | 9.15e-64 | 198 |
| Msa0454440 | MtrunA17_Chr3g0101231 | 58.974 | 195 | 72 | 5 | 1 | 192 | 1 | 190 | 1.64e-58 | 196 |
| Msa0454440 | MtrunA17_Chr3g0101251 | 56.995 | 193 | 70 | 5 | 1 | 192 | 1 | 181 | 4.97e-57 | 192 |
| Msa0454440 | MtrunA17_Chr3g0101361 | 55.612 | 196 | 76 | 6 | 1 | 192 | 1 | 189 | 3.71e-54 | 183 |
| Msa0454440 | MtrunA17_Chr3g0101201 | 55.155 | 194 | 76 | 5 | 1 | 191 | 1 | 186 | 4.25e-53 | 181 |
| Msa0454440 | MtrunA17_Chr3g0101271 | 61.728 | 162 | 49 | 5 | 31 | 192 | 10 | 158 | 1.53e-51 | 177 |
| Msa0454440 | MtrunA17_Chr3g0101241 | 61.728 | 162 | 49 | 5 | 31 | 192 | 10 | 158 | 1.64e-51 | 177 |
| Msa0454440 | MtrunA17_Chr3g0101221 | 53.093 | 194 | 79 | 5 | 1 | 192 | 1 | 184 | 4.41e-51 | 176 |
| Msa0454440 | MtrunA17_Chr3g0100831 | 45.833 | 192 | 92 | 3 | 1 | 192 | 1 | 180 | 2.74e-46 | 162 |
| Msa0454440 | MtrunA17_Chr3g0100961 | 44.271 | 192 | 95 | 3 | 1 | 192 | 1 | 180 | 5.02e-46 | 161 |
| Msa0454440 | MtrunA17_Chr3g0101421 | 43.229 | 192 | 99 | 4 | 1 | 192 | 1 | 182 | 1.06e-44 | 149 |
| Msa0454440 | MtrunA17_Chr1g0189351 | 47.396 | 192 | 86 | 4 | 1 | 192 | 1 | 177 | 6.44e-44 | 155 |
| Msa0454440 | MtrunA17_Chr3g0101341 | 51.744 | 172 | 67 | 4 | 31 | 192 | 1 | 166 | 8.34e-43 | 144 |
| Msa0454440 | MtrunA17_Chr3g0100781 | 45.556 | 180 | 89 | 4 | 14 | 192 | 6 | 177 | 1.20e-42 | 146 |
| Msa0454440 | MtrunA17_Chr3g0101331 | 42.708 | 192 | 100 | 3 | 1 | 192 | 1 | 182 | 5.29e-42 | 150 |
| Msa0454440 | MtrunA17_Chr3g0100971 | 44.560 | 193 | 90 | 5 | 1 | 192 | 1 | 177 | 9.13e-42 | 149 |
| Msa0454440 | MtrunA17_Chr3g0100701 | 42.632 | 190 | 97 | 2 | 1 | 190 | 1 | 178 | 1.53e-40 | 145 |
| Msa0454440 | MtrunA17_Chr3g0100721 | 44.382 | 178 | 90 | 4 | 14 | 190 | 6 | 175 | 7.65e-37 | 127 |
| Msa0454440 | MtrunA17_Chr3g0101181 | 51.807 | 166 | 71 | 5 | 27 | 190 | 29 | 187 | 1.26e-35 | 132 |
| Msa0454440 | MtrunA17_Chr3g0112511 | 43.258 | 178 | 88 | 4 | 14 | 191 | 6 | 170 | 9.74e-35 | 129 |
| Msa0454440 | MtrunA17_Chr3g0100841 | 56.989 | 93 | 39 | 1 | 14 | 105 | 6 | 98 | 1.82e-32 | 112 |
| Msa0454440 | MtrunA17_Chr3g0094301 | 36.788 | 193 | 110 | 4 | 1 | 192 | 1 | 182 | 2.15e-27 | 108 |
| Msa0454440 | MtrunA17_Chr7g0229761 | 36.788 | 193 | 110 | 4 | 1 | 192 | 1 | 182 | 2.15e-27 | 108 |
| Msa0454440 | MtrunA17_Chr3g0080741 | 38.071 | 197 | 104 | 7 | 1 | 192 | 1 | 184 | 3.66e-27 | 107 |
| Msa0454440 | MtrunA17_Chr3g0080601 | 35.897 | 195 | 108 | 5 | 1 | 192 | 1 | 181 | 7.55e-27 | 106 |
| Msa0454440 | MtrunA17_Chr3g0100801 | 35.556 | 180 | 78 | 4 | 14 | 192 | 3 | 145 | 4.66e-26 | 104 |
| Msa0454440 | MtrunA17_Chr3g0100761 | 35.233 | 193 | 68 | 5 | 1 | 192 | 1 | 137 | 5.44e-26 | 104 |
| Msa0454440 | MtrunA17_Chr3g0101321 | 35.593 | 177 | 106 | 3 | 14 | 190 | 6 | 174 | 2.67e-25 | 102 |
| Msa0454440 | MtrunA17_Chr3g0080751 | 32.990 | 194 | 116 | 5 | 1 | 192 | 1 | 182 | 4.26e-25 | 101 |
| Msa0454440 | MtrunA17_Chr3g0080791 | 35.533 | 197 | 107 | 6 | 1 | 192 | 1 | 182 | 4.78e-25 | 101 |
| Msa0454440 | MtrunA17_Chr3g0080631 | 34.682 | 173 | 109 | 3 | 21 | 192 | 13 | 182 | 4.88e-25 | 101 |
| Msa0454440 | MtrunA17_Chr1g0189261 | 47.475 | 99 | 44 | 1 | 1 | 99 | 1 | 91 | 1.76e-24 | 92.0 |
| Msa0454440 | MtrunA17_Chr3g0081211 | 35.567 | 194 | 109 | 5 | 1 | 192 | 1 | 180 | 1.13e-23 | 97.8 |
| Msa0454440 | MtrunA17_Chr3g0080701 | 33.505 | 194 | 118 | 4 | 1 | 192 | 1 | 185 | 1.24e-23 | 94.0 |
| Msa0454440 | MtrunA17_Chr1g0189301 | 44.068 | 118 | 59 | 3 | 75 | 192 | 3 | 113 | 1.27e-23 | 90.9 |
| Msa0454440 | MtrunA17_Chr3g0080771 | 36.269 | 193 | 111 | 5 | 1 | 192 | 1 | 182 | 1.54e-23 | 97.4 |
| Msa0454440 | MtrunA17_Chr3g0080651 | 33.333 | 192 | 118 | 3 | 1 | 192 | 4 | 185 | 1.09e-22 | 94.7 |
| Msa0454440 | MtrunA17_Chr3g0080731 | 32.292 | 192 | 120 | 3 | 1 | 192 | 1 | 182 | 1.70e-21 | 91.3 |
| Msa0454440 | MtrunA17_Chr3g0081191 | 34.518 | 197 | 108 | 6 | 1 | 192 | 1 | 181 | 1.00e-20 | 89.0 |
| Msa0454440 | MtrunA17_Chr3g0081341 | 32.990 | 194 | 113 | 3 | 1 | 192 | 66 | 244 | 4.44e-20 | 87.4 |
| Msa0454440 | MtrunA17_Chr3g0101411 | 40.698 | 86 | 43 | 1 | 1 | 86 | 1 | 78 | 2.25e-16 | 70.5 |
| Msa0454440 | MtrunA17_Chr3g0081371 | 28.061 | 196 | 119 | 4 | 1 | 192 | 13 | 190 | 1.15e-15 | 74.3 |
| Msa0454440 | MtrunA17_Chr3g0081391 | 30.256 | 195 | 119 | 5 | 1 | 192 | 1 | 181 | 2.23e-15 | 73.6 |
| Msa0454440 | MtrunA17_Chr1g0151481 | 28.358 | 201 | 116 | 7 | 1 | 192 | 1 | 182 | 3.41e-14 | 70.1 |
| Msa0454440 | MtrunA17_Chr3g0081181 | 28.125 | 192 | 116 | 4 | 1 | 192 | 1 | 170 | 1.22e-13 | 68.6 |
| Msa0454440 | MtrunA17_Chr3g0101401 | 40.594 | 101 | 56 | 2 | 93 | 192 | 1 | 98 | 9.88e-13 | 63.5 |
| Msa0454440 | MtrunA17_Chr3g0081361 | 25.628 | 199 | 120 | 5 | 1 | 192 | 13 | 190 | 1.13e-11 | 62.8 |
| 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 38 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTCATGCCTGCAACTTCTTT+TGG | 0.152707 | 3_3:-45876857 | None:intergenic |
| CCATTTGCTTCCACTATTAA+AGG | 0.206014 | 3_3:+45876808 | Msa0454440:CDS |
| TGAGCTTCTCCAATGTAAAA+TGG | 0.306456 | 3_3:-45877283 | Msa0454450:three_prime_UTR |
| TGGGACACCTCTTATCATAT+TGG | 0.334670 | 3_3:-45876837 | None:intergenic |
| ACAAATAGCTTACAAGATTC+AGG | 0.342069 | 3_3:+45877120 | Msa0454440:CDS |
| TGTAAAATGGAGCCTCTCTA+AGG | 0.355261 | 3_3:-45877270 | Msa0454450:three_prime_UTR |
| CTCTCTAAGGCTGTTCAATA+TGG | 0.364329 | 3_3:-45877257 | None:intergenic |
| GTGTCAAAGATGATTTGATT+TGG | 0.384640 | 3_3:-45877201 | None:intergenic |
| CGTATTGTCTTCTTCAGCTT+CGG | 0.406189 | 3_3:-45876930 | None:intergenic |
| ATCAGTTGCTTCCGTTAGCT+CGG | 0.416517 | 3_3:+45876783 | Msa0454440:CDS |
| GGACAACAGCCTCATGATCC+TGG | 0.455968 | 3_3:+45877040 | Msa0454440:CDS |
| GGTGTCCCAAAAGAAGTTGC+AGG | 0.466742 | 3_3:+45876851 | Msa0454440:CDS |
| TTGGTTACTTCCTTTAATAG+TGG | 0.473358 | 3_3:-45876818 | None:intergenic |
| ATTGGAGAAGCTCAAGTTGT+GGG | 0.481313 | 3_3:+45877292 | Msa0454440:CDS |
| GGAAGTAAAGCTGCACATCC+AGG | 0.482828 | 3_3:-45877058 | None:intergenic |
| ATTTGATTTGGAGGAATCCA+TGG | 0.496505 | 3_3:-45877189 | None:intergenic |
| GTTAGTGCAATGGATGATAC+TGG | 0.513053 | 3_3:+45877157 | Msa0454440:CDS |
| GAAGTAACCAATATGATAAG+AGG | 0.516962 | 3_3:+45876830 | Msa0454440:CDS |
| TATTTGTAGACGAAGAATCC+TGG | 0.518262 | 3_3:-45877104 | None:intergenic |
| TCAGTTGCTTCCGTTAGCTC+GGG | 0.519761 | 3_3:+45876784 | Msa0454440:CDS |
| TCAAAGATGATTTGATTTGG+AGG | 0.522967 | 3_3:-45877198 | None:intergenic |
| CCTTTAATAGTGGAAGCAAA+TGG | 0.531188 | 3_3:-45876808 | None:intergenic |
| AGCAAATGGTCCCGAGCTAA+CGG | 0.531567 | 3_3:-45876794 | None:intergenic |
| CATTGGAGAAGCTCAAGTTG+TGG | 0.576741 | 3_3:+45877291 | Msa0454440:CDS |
| AAGCAACTGATCGCAAGCAA+AGG | 0.607201 | 3_3:-45876771 | None:intergenic |
| GAAGAAGACAATACGCGCGA+CGG | 0.608675 | 3_3:+45876938 | Msa0454440:CDS |
| TAAGTCACTAGTTAGTGCAA+TGG | 0.609987 | 3_3:+45877147 | Msa0454440:CDS |
| CATATTGAACAGCCTTAGAG+AGG | 0.634612 | 3_3:+45877258 | Msa0454440:CDS |
| TTGTACCTTGATATCTCATG+GGG | 0.636110 | 3_3:-45877323 | Msa0454450:three_prime_UTR |
| GCTGCACATCCAGGATCATG+AGG | 0.642394 | 3_3:-45877049 | None:intergenic |
| TGATGAATATATGATATGTG+AGG | 0.659084 | 3_3:+45877018 | Msa0454440:CDS |
| GATGAATATATGATATGTGA+GGG | 0.669067 | 3_3:+45877019 | Msa0454440:CDS |
| ATCAAATCATCTTTGACACG+AGG | 0.674690 | 3_3:+45877205 | Msa0454440:CDS |
| AGTGCAATGGATGATACTGG+TGG | 0.723556 | 3_3:+45877160 | Msa0454440:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TGATGAATATATGATATGTG+AGG | + | chr3_3:45877018-45877037 | Msa0454440:CDS | 25.0% |
| ! | GATGAATATATGATATGTGA+GGG | + | chr3_3:45877019-45877038 | Msa0454440:CDS | 25.0% |
| TTGGTTACTTCCTTTAATAG+TGG | - | chr3_3:45876821-45876840 | None:intergenic | 30.0% | |
| GAAGTAACCAATATGATAAG+AGG | + | chr3_3:45876830-45876849 | Msa0454440:CDS | 30.0% | |
| TTGAAAAAGTCTTTAGTCTC+AGG | - | chr3_3:45877082-45877101 | None:intergenic | 30.0% | |
| !!! | CTAAAGACTTTTTCAAAACC+AGG | + | chr3_3:45877086-45877105 | Msa0454440:CDS | 30.0% |
| ACAAATAGCTTACAAGATTC+AGG | + | chr3_3:45877120-45877139 | Msa0454440:CDS | 30.0% | |
| !! | TCAAAGATGATTTGATTTGG+AGG | - | chr3_3:45877201-45877220 | None:intergenic | 30.0% |
| GTGTCAAAGATGATTTGATT+TGG | - | chr3_3:45877204-45877223 | None:intergenic | 30.0% | |
| ! | CCTTTAATAGTGGAAGCAAA+TGG | - | chr3_3:45876811-45876830 | None:intergenic | 35.0% |
| CCATTTGCTTCCACTATTAA+AGG | + | chr3_3:45876808-45876827 | Msa0454440:CDS | 35.0% | |
| TATTTGTAGACGAAGAATCC+TGG | - | chr3_3:45877107-45877126 | None:intergenic | 35.0% | |
| TAAGTCACTAGTTAGTGCAA+TGG | + | chr3_3:45877147-45877166 | Msa0454440:CDS | 35.0% | |
| !! | ATTTGATTTGGAGGAATCCA+TGG | - | chr3_3:45877192-45877211 | None:intergenic | 35.0% |
| ATCAAATCATCTTTGACACG+AGG | + | chr3_3:45877205-45877224 | Msa0454440:CDS | 35.0% | |
| TGAGCTTCTCCAATGTAAAA+TGG | - | chr3_3:45877286-45877305 | Msa0454450:three_prime_UTR | 35.0% | |
| TGGGACACCTCTTATCATAT+TGG | - | chr3_3:45876840-45876859 | None:intergenic | 40.0% | |
| ! | TCATGCCTGCAACTTCTTTT+GGG | - | chr3_3:45876859-45876878 | None:intergenic | 40.0% |
| ! | TTCATGCCTGCAACTTCTTT+TGG | - | chr3_3:45876860-45876879 | None:intergenic | 40.0% |
| CGTATTGTCTTCTTCAGCTT+CGG | - | chr3_3:45876933-45876952 | None:intergenic | 40.0% | |
| GTTAGTGCAATGGATGATAC+TGG | + | chr3_3:45877157-45877176 | Msa0454440:CDS | 40.0% | |
| GATACTGGTGGAAAAAACCA+TGG | + | chr3_3:45877172-45877191 | Msa0454440:CDS | 40.0% | |
| !! | CTCTCTAAGGCTGTTCAATA+TGG | - | chr3_3:45877260-45877279 | None:intergenic | 40.0% |
| CATATTGAACAGCCTTAGAG+AGG | + | chr3_3:45877258-45877277 | Msa0454440:CDS | 40.0% | |
| TGTAAAATGGAGCCTCTCTA+AGG | - | chr3_3:45877273-45877292 | Msa0454450:three_prime_UTR | 40.0% | |
| ! | AGAGAGGCTCCATTTTACAT+TGG | + | chr3_3:45877274-45877293 | Msa0454440:CDS | 40.0% |
| ! | ATTGGAGAAGCTCAAGTTGT+GGG | + | chr3_3:45877292-45877311 | Msa0454440:CDS | 40.0% |
| AAGCAACTGATCGCAAGCAA+AGG | - | chr3_3:45876774-45876793 | None:intergenic | 45.0% | |
| ATCAGTTGCTTCCGTTAGCT+CGG | + | chr3_3:45876783-45876802 | Msa0454440:CDS | 45.0% | |
| AGTGCAATGGATGATACTGG+TGG | + | chr3_3:45877160-45877179 | Msa0454440:CDS | 45.0% | |
| ! | CATTGGAGAAGCTCAAGTTG+TGG | + | chr3_3:45877291-45877310 | Msa0454440:CDS | 45.0% |
| TCAGTTGCTTCCGTTAGCTC+GGG | + | chr3_3:45876784-45876803 | Msa0454440:CDS | 50.0% | |
| AGCAAATGGTCCCGAGCTAA+CGG | - | chr3_3:45876797-45876816 | None:intergenic | 50.0% | |
| GGTGTCCCAAAAGAAGTTGC+AGG | + | chr3_3:45876851-45876870 | Msa0454440:CDS | 50.0% | |
| GAAGAAGACAATACGCGCGA+CGG | + | chr3_3:45876938-45876957 | Msa0454440:CDS | 50.0% | |
| GGAAGTAAAGCTGCACATCC+AGG | - | chr3_3:45877061-45877080 | None:intergenic | 50.0% | |
| GGACAACAGCCTCATGATCC+TGG | + | chr3_3:45877040-45877059 | Msa0454440:CDS | 55.0% | |
| GCTGCACATCCAGGATCATG+AGG | - | chr3_3:45877052-45877071 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 45876752 | 45877330 | 45876752 | ID=Msa0454440;Name=Msa0454440 |
| chr3_3 | mRNA | 45876752 | 45877330 | 45876752 | ID=Msa0454440-mRNA-1;Parent=Msa0454440;Name=Msa0454440-mRNA-1;_AED=0.46;_eAED=0.46;_QI=0|-1|0|1|-1|1|1|0|192 |
| chr3_3 | exon | 45876752 | 45877330 | 45876752 | ID=Msa0454440-mRNA-1:exon:8510;Parent=Msa0454440-mRNA-1 |
| chr3_3 | CDS | 45876752 | 45877330 | 45876752 | ID=Msa0454440-mRNA-1:cds;Parent=Msa0454440-mRNA-1 |
| Gene Sequence |
| Protein sequence |
