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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0621080 | CAB65279.1 | 100.000 | 97 | 0 | 0 | 1 | 97 | 262 | 358 | 1.16e-64 | 209 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0621080 | sp|I1M2U5|NAMT1_SOYBN | 72.165 | 97 | 27 | 0 | 1 | 97 | 259 | 355 | 3.41e-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 |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0618200 | Msa0621080 | 0.820095 | 8.218326e-53 | -8.615850e-47 |
| Msa0621080 | Msa0657460 | 0.805768 | 1.138232e-49 | -8.615850e-47 |
| Msa0621080 | Msa0661710 | -0.828860 | 7.108439e-55 | -8.615850e-47 |
| Msa0621080 | Msa1001580 | -0.807699 | 4.450179e-50 | -8.615850e-47 |
| Msa0621080 | Msa1088290 | -0.814200 | 1.739067e-51 | -8.615850e-47 |
| Msa0621080 | Msa1126120 | 0.809297 | 2.028850e-50 | -8.615850e-47 |
| Msa0621080 | Msa1366650 | -0.820099 | 8.201973e-53 | -8.615850e-47 |
| Msa0621080 | Msa1412930 | 0.814791 | 1.287205e-51 | -8.615850e-47 |
| Msa0186310 | Msa0621080 | -0.819720 | 1.001403e-52 | -8.615850e-47 |
| Msa0189520 | Msa0621080 | -0.801823 | 7.505412e-49 | -8.615850e-47 |
| Msa0377900 | Msa0621080 | 0.941843 | 2.048922e-101 | -8.615850e-47 |
| Msa0378110 | Msa0621080 | 0.965677 | 6.459447e-125 | -8.615850e-47 |
| Msa0387910 | Msa0621080 | -0.813201 | 2.885343e-51 | -8.615850e-47 |
| Msa0419640 | Msa0621080 | 0.814898 | 1.218753e-51 | -8.615850e-47 |
| Msa0421260 | Msa0621080 | -0.801787 | 7.637101e-49 | -8.615850e-47 |
| Msa0436920 | Msa0621080 | 0.814719 | 1.335222e-51 | -8.615850e-47 |
| Msa0467220 | Msa0621080 | -0.814933 | 1.197002e-51 | -8.615850e-47 |
| Msa0473820 | Msa0621080 | 0.822000 | 2.993746e-53 | -8.615850e-47 |
| Msa0473830 | Msa0621080 | 0.958015 | 6.677269e-116 | -8.615850e-47 |
| Msa0271360 | Msa0621080 | -0.828166 | 1.045318e-54 | -8.615850e-47 |
| Msa0309880 | Msa0621080 | -0.805510 | 1.289416e-49 | -8.615850e-47 |
| Msa0335320 | Msa0621080 | 0.804843 | 1.777840e-49 | -8.615850e-47 |
| Msa0338700 | Msa0621080 | 0.801826 | 7.497435e-49 | -8.615850e-47 |
| Msa0518070 | Msa0621080 | 0.949408 | 1.353186e-107 | -8.615850e-47 |
| Msa0565620 | Msa0621080 | 0.802248 | 6.140097e-49 | -8.615850e-47 |
| Msa0600410 | Msa0621080 | 0.803573 | 3.269074e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0621080 | MtrunA17_Chr3g0130061 | 97.938 | 97 | 2 | 0 | 1 | 97 | 262 | 358 | 1.12e-67 | 206 |
| Msa0621080 | MtrunA17_Chr3g0130011 | 82.474 | 97 | 17 | 0 | 1 | 97 | 262 | 358 | 3.12e-54 | 172 |
| Msa0621080 | MtrunA17_Chr2g0314271 | 67.010 | 97 | 32 | 0 | 1 | 97 | 258 | 354 | 5.77e-46 | 150 |
| Msa0621080 | MtrunA17_Chr3g0128011 | 40.000 | 95 | 54 | 3 | 4 | 97 | 325 | 417 | 1.09e-15 | 70.5 |
| Msa0621080 | MtrunA17_Chr7g0276401 | 36.170 | 94 | 59 | 1 | 4 | 97 | 283 | 375 | 2.28e-15 | 69.7 |
| Msa0621080 | MtrunA17_Chr2g0307521 | 38.272 | 81 | 46 | 2 | 4 | 83 | 271 | 348 | 3.92e-15 | 68.9 |
| Msa0621080 | MtrunA17_Chr1g0163601 | 42.308 | 78 | 43 | 1 | 4 | 81 | 277 | 352 | 7.24e-15 | 68.2 |
| Msa0621080 | MtrunA17_Chr8g0367491 | 38.298 | 94 | 57 | 1 | 4 | 97 | 284 | 376 | 8.03e-15 | 68.2 |
| Msa0621080 | MtrunA17_Chr8g0367441 | 40.206 | 97 | 51 | 3 | 4 | 97 | 285 | 377 | 8.63e-15 | 68.2 |
| Msa0621080 | MtrunA17_Chr1g0163621 | 39.744 | 78 | 45 | 1 | 4 | 81 | 291 | 366 | 2.54e-14 | 66.6 |
| Msa0621080 | MtrunA17_Chr8g0367391 | 40.206 | 97 | 51 | 3 | 4 | 97 | 42 | 134 | 2.92e-14 | 63.5 |
| Msa0621080 | MtrunA17_Chr1g0163611 | 37.500 | 96 | 56 | 2 | 4 | 97 | 277 | 370 | 3.25e-14 | 66.2 |
| Msa0621080 | MtrunA17_Chr7g0218271 | 39.080 | 87 | 47 | 2 | 4 | 86 | 283 | 367 | 3.70e-14 | 66.2 |
| Msa0621080 | MtrunA17_Chr3g0085201 | 41.026 | 78 | 43 | 2 | 4 | 81 | 266 | 340 | 4.20e-14 | 65.9 |
| Msa0621080 | MtrunA17_Chr5g0448091 | 35.106 | 94 | 60 | 1 | 4 | 97 | 271 | 363 | 6.94e-14 | 65.5 |
| Msa0621080 | MtrunA17_Chr7g0218131 | 41.463 | 82 | 40 | 3 | 4 | 82 | 278 | 354 | 7.02e-14 | 65.5 |
| Msa0621080 | MtrunA17_Chr8g0367461 | 36.170 | 94 | 59 | 1 | 4 | 97 | 20 | 112 | 1.01e-13 | 61.6 |
| Msa0621080 | MtrunA17_Chr7g0218211 | 39.241 | 79 | 46 | 1 | 4 | 82 | 277 | 353 | 1.25e-13 | 64.7 |
| Msa0621080 | MtrunA17_Chr8g0345851 | 32.979 | 94 | 62 | 1 | 4 | 97 | 198 | 290 | 3.61e-13 | 63.2 |
| Msa0621080 | MtrunA17_Chr7g0276411 | 37.234 | 94 | 58 | 1 | 4 | 97 | 270 | 362 | 3.62e-13 | 63.5 |
| Msa0621080 | MtrunA17_Chr7g0218301 | 37.931 | 87 | 48 | 2 | 4 | 86 | 283 | 367 | 7.57e-13 | 62.4 |
| Msa0621080 | MtrunA17_Chr7g0218261 | 38.636 | 88 | 46 | 3 | 4 | 86 | 276 | 360 | 9.48e-13 | 62.4 |
| Msa0621080 | MtrunA17_Chr3g0085211 | 38.947 | 95 | 54 | 2 | 4 | 97 | 279 | 370 | 1.05e-12 | 62.0 |
| Msa0621080 | MtrunA17_Chr8g0367451 | 37.333 | 75 | 46 | 1 | 4 | 78 | 284 | 357 | 3.23e-12 | 60.8 |
| Msa0621080 | MtrunA17_Chr1g0200491 | 37.255 | 102 | 49 | 5 | 3 | 97 | 279 | 372 | 3.28e-12 | 60.8 |
| Msa0621080 | MtrunA17_Chr4g0046531 | 36.471 | 85 | 49 | 2 | 3 | 84 | 623 | 705 | 6.13e-12 | 60.1 |
| Msa0621080 | MtrunA17_Chr4g0046531 | 36.471 | 85 | 49 | 2 | 3 | 84 | 261 | 343 | 5.33e-11 | 57.4 |
| Msa0621080 | MtrunA17_Chr8g0367501 | 34.066 | 91 | 57 | 2 | 4 | 94 | 271 | 358 | 1.29e-11 | 58.9 |
| Msa0621080 | MtrunA17_Chr7g0218181 | 38.272 | 81 | 42 | 3 | 4 | 81 | 275 | 350 | 1.79e-11 | 58.5 |
| Msa0621080 | MtrunA17_Chr6g0482291 | 32.967 | 91 | 60 | 1 | 7 | 97 | 87 | 176 | 1.85e-11 | 57.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0621080 | AT3G53140.1 | 69.072 | 97 | 30 | 0 | 1 | 97 | 263 | 359 | 5.96e-47 | 153 |
| Msa0621080 | AT1G33030.1 | 38.947 | 95 | 57 | 1 | 3 | 97 | 257 | 350 | 3.11e-17 | 75.1 |
| Msa0621080 | AT5G54160.1 | 42.667 | 75 | 42 | 1 | 4 | 78 | 269 | 342 | 1.83e-15 | 70.1 |
| Msa0621080 | AT1G77520.1 | 35.789 | 95 | 59 | 2 | 4 | 97 | 288 | 381 | 2.75e-14 | 67.0 |
| Msa0621080 | AT1G62900.1 | 35.106 | 94 | 61 | 0 | 4 | 97 | 112 | 205 | 5.61e-14 | 64.7 |
| Msa0621080 | AT1G76790.1 | 35.632 | 87 | 52 | 1 | 4 | 86 | 272 | 358 | 6.55e-14 | 65.9 |
| Msa0621080 | AT1G77530.1 | 37.113 | 97 | 55 | 3 | 4 | 97 | 288 | 381 | 8.36e-14 | 65.5 |
| Msa0621080 | AT1G63140.2 | 35.106 | 94 | 61 | 0 | 4 | 97 | 288 | 381 | 1.97e-13 | 64.7 |
| Msa0621080 | AT1G63140.4 | 35.106 | 94 | 61 | 0 | 4 | 97 | 308 | 401 | 2.18e-13 | 64.3 |
| Msa0621080 | AT1G51990.2 | 39.474 | 76 | 44 | 2 | 4 | 78 | 269 | 343 | 2.77e-13 | 64.3 |
| Msa0621080 | AT1G51990.1 | 39.474 | 76 | 44 | 2 | 4 | 78 | 269 | 343 | 2.94e-13 | 63.9 |
| Msa0621080 | AT1G21110.1 | 39.474 | 76 | 44 | 2 | 4 | 78 | 280 | 354 | 1.00e-12 | 62.8 |
| Msa0621080 | AT1G21100.1 | 39.474 | 76 | 44 | 2 | 4 | 78 | 280 | 354 | 1.02e-12 | 62.4 |
| Msa0621080 | AT5G37170.3 | 31.579 | 95 | 63 | 2 | 4 | 97 | 93 | 186 | 5.74e-12 | 58.9 |
| Msa0621080 | AT1G21130.1 | 38.158 | 76 | 45 | 2 | 4 | 78 | 280 | 354 | 6.03e-12 | 60.5 |
| Msa0621080 | AT5G37170.2 | 30.851 | 94 | 65 | 0 | 4 | 97 | 141 | 234 | 1.05e-11 | 58.9 |
| Msa0621080 | AT1G21120.1 | 38.158 | 76 | 45 | 2 | 4 | 78 | 280 | 354 | 2.11e-11 | 58.9 |
| Msa0621080 | AT1G21120.2 | 38.158 | 76 | 45 | 2 | 4 | 78 | 328 | 402 | 2.33e-11 | 58.9 |
| Msa0621080 | AT5G37170.1 | 30.851 | 94 | 65 | 0 | 4 | 97 | 241 | 334 | 2.71e-11 | 58.5 |
| Msa0621080 | AT5G53810.1 | 34.043 | 94 | 62 | 0 | 4 | 97 | 285 | 378 | 4.46e-11 | 57.8 |
Find 21 sgRNAs with CRISPR-Local
Find 21 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATTCTAGAACAGGAAAATA+AGG | 0.340914 | 4_2:-72991501 | None:intergenic |
| GAACTGCTACAAGGCTCTTC+CGG | 0.408093 | 4_2:+72991281 | Msa0621080:CDS |
| CATTTCTGAAATTCTAGAAC+AGG | 0.425960 | 4_2:-72991510 | None:intergenic |
| AATGACAATGTATAGAACTA+AGG | 0.447407 | 4_2:+72991398 | Msa0621080:CDS |
| AAGTTGTTTGAATTGTTCTT+CGG | 0.452222 | 4_2:-72991433 | None:intergenic |
| AAACAACTTGGCATTTCTAC+TGG | 0.457428 | 4_2:+72991447 | Msa0621080:CDS |
| TCTTGTTCTTTGACTCTCAT+CGG | 0.494808 | 4_2:-72991349 | None:intergenic |
| TGACTCTCATCGGTCAGCTC+CGG | 0.508920 | 4_2:-72991339 | None:intergenic |
| AAGAACAAGAGCATTGTTGT+CGG | 0.531999 | 4_2:+72991362 | Msa0621080:CDS |
| AGAACAAGAGCATTGTTGTC+GGG | 0.535407 | 4_2:+72991363 | Msa0621080:CDS |
| TGTTTGTGAGCCGGTGTCAC+CGG | 0.537744 | 4_2:+72991320 | Msa0621080:CDS |
| ATGACAATGTATAGAACTAA+GGG | 0.551447 | 4_2:+72991399 | Msa0621080:CDS |
| TACAAGGCTCTTCCGGTGAA+CGG | 0.576438 | 4_2:+72991288 | Msa0621080:CDS |
| AAAATTGATTGTTTGTGAGC+CGG | 0.585030 | 4_2:+72991311 | Msa0621080:CDS |
| GGTCTTGCAGAACTGCTACA+AGG | 0.589457 | 4_2:+72991272 | Msa0621080:CDS |
| TGCAGTGGACAATGTTAACA+TGG | 0.590972 | 4_2:+72991229 | None:intergenic |
| AAAATAAGGATCAATGTGGA+AGG | 0.596257 | 4_2:-72991487 | None:intergenic |
| GAAGAACAATTCAAACAACT+TGG | 0.603168 | 4_2:+72991435 | Msa0621080:CDS |
| TCGGTCAGCTCCGGTGACAC+CGG | 0.614991 | 4_2:-72991330 | None:intergenic |
| GACAGATGAAGAATGCAAGA+AGG | 0.634205 | 4_2:+72991251 | Msa0621080:CDS |
| CAGGAAAATAAGGATCAATG+TGG | 0.660747 | 4_2:-72991491 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AATGACAATGTATAGAACTA+AGG | + | chr4_2:72991398-72991417 | Msa0621080:CDS | 25.0% |
| ! | ATGACAATGTATAGAACTAA+GGG | + | chr4_2:72991399-72991418 | Msa0621080:CDS | 25.0% |
| ! | AAGTTGTTTGAATTGTTCTT+CGG | - | chr4_2:72991436-72991455 | None:intergenic | 25.0% |
| !!! | AATTCTAGAACAGGAAAATA+AGG | - | chr4_2:72991504-72991523 | None:intergenic | 25.0% |
| AAAATTGATTGTTTGTGAGC+CGG | + | chr4_2:72991311-72991330 | Msa0621080:CDS | 30.0% | |
| GAAGAACAATTCAAACAACT+TGG | + | chr4_2:72991435-72991454 | Msa0621080:CDS | 30.0% | |
| AAAATAAGGATCAATGTGGA+AGG | - | chr4_2:72991490-72991509 | None:intergenic | 30.0% | |
| !! | CATTTCTGAAATTCTAGAAC+AGG | - | chr4_2:72991513-72991532 | None:intergenic | 30.0% |
| ! | ACAATCAATTTTCCGTTCAC+CGG | - | chr4_2:72991303-72991322 | None:intergenic | 35.0% |
| TCTTGTTCTTTGACTCTCAT+CGG | - | chr4_2:72991352-72991371 | None:intergenic | 35.0% | |
| !! | AAGAACAAGAGCATTGTTGT+CGG | + | chr4_2:72991362-72991381 | Msa0621080:CDS | 35.0% |
| AAACAACTTGGCATTTCTAC+TGG | + | chr4_2:72991447-72991466 | Msa0621080:CDS | 35.0% | |
| CAGGAAAATAAGGATCAATG+TGG | - | chr4_2:72991494-72991513 | None:intergenic | 35.0% | |
| GACAGATGAAGAATGCAAGA+AGG | + | chr4_2:72991251-72991270 | Msa0621080:CDS | 40.0% | |
| !! | AGAACAAGAGCATTGTTGTC+GGG | + | chr4_2:72991363-72991382 | Msa0621080:CDS | 40.0% |
| GGTCTTGCAGAACTGCTACA+AGG | + | chr4_2:72991272-72991291 | Msa0621080:CDS | 50.0% | |
| GAACTGCTACAAGGCTCTTC+CGG | + | chr4_2:72991281-72991300 | Msa0621080:CDS | 50.0% | |
| TACAAGGCTCTTCCGGTGAA+CGG | + | chr4_2:72991288-72991307 | Msa0621080:CDS | 50.0% | |
| !! | TGTTTGTGAGCCGGTGTCAC+CGG | + | chr4_2:72991320-72991339 | Msa0621080:CDS | 55.0% |
| TGACTCTCATCGGTCAGCTC+CGG | - | chr4_2:72991342-72991361 | None:intergenic | 55.0% | |
| TCGGTCAGCTCCGGTGACAC+CGG | - | chr4_2:72991333-72991352 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_2 | gene | 72991240 | 72991533 | 72991240 | ID=Msa0621080;Name=Msa0621080 |
| chr4_2 | mRNA | 72991240 | 72991533 | 72991240 | ID=Msa0621080-mRNA-1;Parent=Msa0621080;Name=Msa0621080-mRNA-1;_AED=0.45;_eAED=0.45;_QI=0|-1|0|1|-1|1|1|0|97 |
| chr4_2 | exon | 72991240 | 72991533 | 72991240 | ID=Msa0621080-mRNA-1:exon:21899;Parent=Msa0621080-mRNA-1 |
| chr4_2 | CDS | 72991240 | 72991533 | 72991240 | ID=Msa0621080-mRNA-1:cds;Parent=Msa0621080-mRNA-1 |
| Gene Sequence |
| Protein sequence |
