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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0380012539.01.T01 | XP_013459123.2 | 91.837 | 196 | 15 | 1 | 2 | 197 | 1 | 195 | 8.24E-101 | 306 |
| MsG0380012539.01.T01 | XP_013459123.2 | 52.752 | 218 | 44 | 6 | 38 | 202 | 123 | 334 | 3.42E-34 | 135 |
| MsG0380012539.01.T01 | XP_013459123.2 | 54.054 | 185 | 52 | 4 | 38 | 194 | 169 | 348 | 2.26E-31 | 127 |
| MsG0380012539.01.T01 | XP_013459123.2 | 54.015 | 137 | 50 | 3 | 25 | 152 | 221 | 353 | 5.90E-19 | 94.7 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0380012539.01.T01 | Q9LXB8 | 56.593 | 182 | 64 | 5 | 29 | 200 | 32 | 208 | 1.68E-34 | 128 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0380012539.01.T01 | A0A396IMU7 | 91.837 | 196 | 15 | 1 | 2 | 197 | 1 | 195 | 3.94e-101 | 306 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsG0380012539.01 | MsG0380012552.01 | 0.813717 | 2.222681e-51 | 1.462567e-48 |
| MsG0380012539.01 | MsG0780040878.01 | 0.802816 | 4.687578e-49 | 2.318585e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0380012539.01.T01 | MTR_3g026290 | 91.327 | 196 | 16 | 1 | 2 | 197 | 1 | 195 | 6.88e-104 | 303 |
| MsG0380012539.01.T01 | MTR_3g026290 | 52.294 | 218 | 45 | 6 | 38 | 202 | 123 | 334 | 2.68e-37 | 133 |
| MsG0380012539.01.T01 | MTR_3g026290 | 54.054 | 185 | 52 | 4 | 38 | 194 | 169 | 348 | 1.87e-35 | 128 |
| MsG0380012539.01.T01 | MTR_3g026290 | 54.015 | 137 | 50 | 3 | 25 | 152 | 221 | 353 | 5.38e-23 | 95.1 |
| MsG0380012539.01.T01 | MTR_3g026330 | 86.364 | 198 | 21 | 2 | 2 | 199 | 1 | 192 | 6.84e-96 | 283 |
| MsG0380012539.01.T01 | MTR_3g026330 | 50.691 | 217 | 50 | 5 | 38 | 202 | 118 | 329 | 1.20e-37 | 133 |
| MsG0380012539.01.T01 | MTR_3g026330 | 48.000 | 175 | 48 | 3 | 33 | 178 | 178 | 338 | 4.44e-24 | 97.8 |
| MsG0380012539.01.T01 | MTR_3g026330 | 53.968 | 126 | 45 | 3 | 25 | 141 | 216 | 337 | 3.53e-19 | 84.3 |
| MsG0380012539.01.T01 | MTR_3g026330 | 59.048 | 105 | 37 | 3 | 27 | 131 | 240 | 338 | 9.00e-18 | 80.5 |
| MsG0380012539.01.T01 | MTR_3g026230 | 68.519 | 216 | 50 | 6 | 2 | 202 | 1 | 213 | 3.78e-70 | 214 |
| MsG0380012539.01.T01 | MTR_3g026160 | 64.179 | 201 | 45 | 6 | 2 | 199 | 1 | 177 | 3.62e-57 | 179 |
| MsG0380012539.01.T01 | MTR_3g026160 | 70.103 | 97 | 27 | 2 | 107 | 202 | 39 | 134 | 9.10e-25 | 95.9 |
| MsG0380012539.01.T01 | MTR_3g026240 | 52.336 | 107 | 43 | 3 | 2 | 105 | 1 | 102 | 4.81e-23 | 90.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0380012539.01.T01 | AT5G09530 | 56.593 | 182 | 64 | 5 | 29 | 200 | 32 | 208 | 1.71e-35 | 128 |
| MsG0380012539.01.T01 | AT5G09530 | 56.395 | 172 | 48 | 4 | 53 | 197 | 156 | 327 | 3.25e-35 | 127 |
| MsG0380012539.01.T01 | AT5G09530 | 55.000 | 180 | 56 | 5 | 36 | 200 | 100 | 269 | 7.52e-35 | 127 |
| MsG0380012539.01.T01 | AT5G09530 | 54.945 | 182 | 67 | 6 | 23 | 195 | 172 | 347 | 2.80e-31 | 117 |
| MsG0380012539.01.T01 | AT5G09530 | 52.542 | 177 | 59 | 8 | 38 | 197 | 201 | 369 | 3.50e-24 | 98.2 |
| MsG0380012539.01.T01 | AT5G09530 | 58.621 | 87 | 22 | 1 | 116 | 202 | 39 | 111 | 1.96e-13 | 68.2 |
| MsG0380012539.01.T01 | AT5G09520 | 61.856 | 97 | 25 | 3 | 103 | 198 | 37 | 122 | 1.66e-19 | 80.9 |
| MsG0380012539.01.T01 | AT5G09520 | 42.308 | 156 | 50 | 5 | 8 | 157 | 9 | 130 | 3.45e-18 | 77.4 |
| MsG0380012539.01.T01 | AT5G09520 | 54.808 | 104 | 37 | 2 | 92 | 195 | 37 | 130 | 1.17e-16 | 73.6 |
Find 55 sgRNAs with CRISPR-Local
Find 72 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCTCCATGCTTTGGCATTTC+AGG | 0.064571 | 3:-19444444 | None:intergenic |
| ATTTCTAGCTTTGGCATTTC+AGG | 0.171374 | 3:-19444273 | None:intergenic |
| GTACCTGATGTTGGAAATTT+AGG | 0.176027 | 3:+19444582 | MsG0380012539.01.T01:CDS |
| TGCTCTAGCTTAGGTGATTC+AGG | 0.217501 | 3:-19444378 | None:intergenic |
| TCAGGTACTTTAGGAATTTC+AGG | 0.236892 | 3:-19444567 | None:intergenic |
| TTTCCAACATCAGGTACTTT+AGG | 0.242668 | 3:-19444576 | None:intergenic |
| TCAGGTACCTTTGGAAAATC+TGG | 0.263505 | 3:-19444183 | None:intergenic |
| TAGTTCAGGCTTTGGTAATT+CGG | 0.273135 | 3:-19444307 | None:intergenic |
| TGCTCTAGCTTAGGTGATTC+GGG | 0.278707 | 3:-19444519 | None:intergenic |
| TTCAGGTACATTTGGTAAAT+CGG | 0.295675 | 3:-19444256 | None:intergenic |
| TTTGGTAATTCGGGCCCTTT+AGG | 0.297052 | 3:-19444297 | None:intergenic |
| TTTGGCATTTCAGGTACTTT+TGG | 0.310573 | 3:-19444435 | None:intergenic |
| ACATTTGGTAAATCGGGTTT+TGG | 0.322738 | 3:-19444249 | None:intergenic |
| ACTTTAGGAATTTCAGGTTT+TGG | 0.325465 | 3:-19444561 | None:intergenic |
| CTGCTCTAGCTTAGGTGATT+CGG | 0.335579 | 3:-19444520 | None:intergenic |
| CCTTTAGGAATTTCTAGCTT+TGG | 0.342883 | 3:-19444282 | None:intergenic |
| ACCTTTGGAAAATCTGGCTT+TGG | 0.350834 | 3:-19444177 | None:intergenic |
| ACACCAGGCTTTGATAATTC+AGG | 0.365890 | 3:-19444201 | None:intergenic |
| AGTTCAGGCTTTGGTAATTC+GGG | 0.369186 | 3:-19444306 | None:intergenic |
| CAATTCAGGGACGCTAAACT+TGG | 0.371826 | 3:-19444331 | None:intergenic |
| TTTGGCATTTCAGGTACATT+TGG | 0.374470 | 3:-19444264 | None:intergenic |
| AATGATTGTTGACAAATTGA+TGG | 0.389721 | 3:-19444013 | None:intergenic |
| TTTGATAATTCAGGTACCTT+TGG | 0.395324 | 3:-19444192 | None:intergenic |
| ACGCTAAACTTGGGTAGTTC+AGG | 0.399917 | 3:-19444321 | None:intergenic |
| AATTCATGTAAAGAAGGTTT+TGG | 0.401002 | 3:-19444153 | None:intergenic |
| AATAGTAACACAAGGGTTGC+CGG | 0.407920 | 3:+19444069 | MsG0380012539.01.T01:CDS |
| AGAGGTGGAAAATCAAGTTT+TGG | 0.411861 | 3:-19444129 | None:intergenic |
| AACTCAGGAACATTAATCTT+AGG | 0.412261 | 3:-19444225 | None:intergenic |
| TCAGGTACATTTGGTAAATC+GGG | 0.418005 | 3:-19444255 | None:intergenic |
| TTAGGCAGTCCTCCATGCTT+TGG | 0.427640 | 3:-19444453 | None:intergenic |
| AACTTGGGTAGTTCAGGCTT+TGG | 0.435785 | 3:-19444315 | None:intergenic |
| TTTGGCAATTCAGGAACCTT+AGG | 0.442441 | 3:-19444402 | None:intergenic |
| TTTGGCAATTCAGGAACCTT+AGG | 0.442441 | 3:-19444543 | None:intergenic |
| TTTGGTAATTCATGTAAAGA+AGG | 0.447865 | 3:-19444159 | None:intergenic |
| ATAGTAACACAAGGGTTGCC+GGG | 0.455490 | 3:+19444070 | MsG0380012539.01.T01:CDS |
| AGACCTAAATTTCCAACATC+AGG | 0.460123 | 3:-19444585 | None:intergenic |
| GCTCTAGCTTAGGTGATTCA+GGG | 0.478301 | 3:-19444377 | None:intergenic |
| CAAAGCTAGAAATTCCTAAA+GGG | 0.484361 | 3:+19444283 | MsG0380012539.01.T01:CDS |
| AATTCAGGAACATTAAACTT+AGG | 0.497894 | 3:-19444471 | None:intergenic |
| CCAAAGCTAGAAATTCCTAA+AGG | 0.510814 | 3:+19444282 | MsG0380012539.01.T01:CDS |
| CTCTAGAAGATTGCGTGCCC+CGG | 0.517761 | 3:-19444088 | None:intergenic |
| ACCTTAGGCTGCTCTAGCTT+AGG | 0.528580 | 3:-19444387 | None:intergenic |
| ACCTTAGGCTGCTCTAGCTT+AGG | 0.528580 | 3:-19444528 | None:intergenic |
| GTACCTGAATTATCAAAGCC+TGG | 0.530045 | 3:+19444198 | MsG0380012539.01.T01:CDS |
| ATTCCTAAAGTACCTGATGT+TGG | 0.533606 | 3:+19444573 | MsG0380012539.01.T01:CDS |
| ACCTAAGCTAGAGCAGCCTA+AGG | 0.584617 | 3:+19444386 | MsG0380012539.01.T01:CDS |
| ACCTAAGCTAGAGCAGCCTA+AGG | 0.584617 | 3:+19444527 | MsG0380012539.01.T01:CDS |
| GTACCTGAAATGCCAAAGCA+TGG | 0.598835 | 3:+19444441 | MsG0380012539.01.T01:CDS |
| ACATTAATCTTAGGAACACC+AGG | 0.609820 | 3:-19444216 | None:intergenic |
| AATTCAGGGACGCTAAACTT+GGG | 0.617837 | 3:-19444330 | None:intergenic |
| TAGTAACACAAGGGTTGCCG+GGG | 0.629976 | 3:+19444071 | MsG0380012539.01.T01:CDS |
| TGTCAACAAATAGTAACACA+AGG | 0.643639 | 3:+19444061 | MsG0380012539.01.T01:CDS |
| GTCAACAAATAGTAACACAA+GGG | 0.665196 | 3:+19444062 | MsG0380012539.01.T01:CDS |
| GCTCTAGCTTAGGTGATTCG+GGG | 0.665529 | 3:-19444518 | None:intergenic |
| CCTGAAATGCCAAAGCATGG+AGG | 0.722806 | 3:+19444444 | MsG0380012539.01.T01:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AATGATTGTTGACAAATTGA+TGG | - | Chr3:19444016-19444035 | None:intergenic | 25.0% |
| ! | AATTCAGGAACATTAAACTT+AGG | - | Chr3:19444474-19444493 | None:intergenic | 25.0% |
| !! | AATTCATGTAAAGAAGGTTT+TGG | - | Chr3:19444156-19444175 | None:intergenic | 25.0% |
| !! | TTTGGTAATTCATGTAAAGA+AGG | - | Chr3:19444162-19444181 | None:intergenic | 25.0% |
| AACTCAGGAACATTAATCTT+AGG | - | Chr3:19444228-19444247 | None:intergenic | 30.0% | |
| CAAAGCTAGAAATTCCTAAA+GGG | + | Chr3:19444283-19444302 | MsG0380012539.01.T01:CDS | 30.0% | |
| GTCAACAAATAGTAACACAA+GGG | + | Chr3:19444062-19444081 | MsG0380012539.01.T01:CDS | 30.0% | |
| TGTCAACAAATAGTAACACA+AGG | + | Chr3:19444061-19444080 | MsG0380012539.01.T01:CDS | 30.0% | |
| TTCAGGTACATTTGGTAAAT+CGG | - | Chr3:19444259-19444278 | None:intergenic | 30.0% | |
| ! | TTTGATAATTCAGGTACCTT+TGG | - | Chr3:19444195-19444214 | None:intergenic | 30.0% |
| !!! | ACTTTAGGAATTTCAGGTTT+TGG | - | Chr3:19444564-19444583 | None:intergenic | 30.0% |
| !!! | ACTTTTGGAATTTCAGGTTT+TGG | - | Chr3:19444423-19444442 | None:intergenic | 30.0% |
| ACATTAATCTTAGGAACACC+AGG | - | Chr3:19444219-19444238 | None:intergenic | 35.0% | |
| AGACCTAAATTTCCAACATC+AGG | - | Chr3:19444588-19444607 | None:intergenic | 35.0% | |
| CCAAAGCTAGAAATTCCTAA+AGG | + | Chr3:19444282-19444301 | MsG0380012539.01.T01:CDS | 35.0% | |
| GTACCTGATGTTGGAAATTT+AGG | + | Chr3:19444582-19444601 | MsG0380012539.01.T01:CDS | 35.0% | |
| TCAGGTACATTTGGTAAATC+GGG | - | Chr3:19444258-19444277 | None:intergenic | 35.0% | |
| TTTCCAACATCAGGTACTTT+AGG | - | Chr3:19444579-19444598 | None:intergenic | 35.0% | |
| ! | ACATTTGGTAAATCGGGTTT+TGG | - | Chr3:19444252-19444271 | None:intergenic | 35.0% |
| ! | AGAGGTGGAAAATCAAGTTT+TGG | - | Chr3:19444132-19444151 | None:intergenic | 35.0% |
| ! | ATTCCTAAAGTACCTGATGT+TGG | + | Chr3:19444573-19444592 | MsG0380012539.01.T01:CDS | 35.0% |
| ! | TAGTTCAGGCTTTGGTAATT+CGG | - | Chr3:19444310-19444329 | None:intergenic | 35.0% |
| ! | TCAGGTACTTTAGGAATTTC+AGG | - | Chr3:19444570-19444589 | None:intergenic | 35.0% |
| ! | TTAGGTGATTCAGGGATTTT+AGG | - | Chr3:19444372-19444391 | None:intergenic | 35.0% |
| ! | TTTGGCATTTCAGGTACATT+TGG | - | Chr3:19444267-19444286 | None:intergenic | 35.0% |
| !! | ATTTCTAGCTTTGGCATTTC+AGG | - | Chr3:19444276-19444295 | None:intergenic | 35.0% |
| !! | ATTTTAGGTAGTTCGGGTTT+TGG | - | Chr3:19444498-19444517 | None:intergenic | 35.0% |
| !! | CCTTTAGGAATTTCTAGCTT+TGG | - | Chr3:19444285-19444304 | None:intergenic | 35.0% |
| !! | TGTAAAGAAGGTTTTGGTAG+AGG | - | Chr3:19444150-19444169 | None:intergenic | 35.0% |
| !! | TTTGGCATTTCAGGTACTTT+TGG | - | Chr3:19444438-19444457 | None:intergenic | 35.0% |
| !!! | ATTTCAGGTTTTGGCAATTC+AGG | - | Chr3:19444414-19444433 | None:intergenic | 35.0% |
| !!! | TCAGGTACTTTTGGAATTTC+AGG | - | Chr3:19444429-19444448 | None:intergenic | 35.0% |
| AATAGTAACACAAGGGTTGC+CGG | + | Chr3:19444069-19444088 | MsG0380012539.01.T01:CDS | 40.0% | |
| AATTCAGGGACGCTAAACTT+GGG | - | Chr3:19444333-19444352 | None:intergenic | 40.0% | |
| GTACCTGAATTATCAAAGCC+TGG | + | Chr3:19444198-19444217 | MsG0380012539.01.T01:CDS | 40.0% | |
| TTTGGCAATTCAGGAACCTT+AGG | - | Chr3:19444405-19444424 | None:intergenic | 40.0% | |
| ! | ACACCAGGCTTTGATAATTC+AGG | - | Chr3:19444204-19444223 | None:intergenic | 40.0% |
| ! | ACCAAAGCCAGATTTTCCAA+AGG | + | Chr3:19444176-19444195 | MsG0380012539.01.T01:CDS | 40.0% |
| ! | ACCTTTGGAAAATCTGGCTT+TGG | - | Chr3:19444180-19444199 | None:intergenic | 40.0% |
| ! | AGTTCAGGCTTTGGTAATTC+GGG | - | Chr3:19444309-19444328 | None:intergenic | 40.0% |
| ! | TCAGGTACCTTTGGAAAATC+TGG | - | Chr3:19444186-19444205 | None:intergenic | 40.0% |
| !! | AAAGAAGGTTTTGGTAGAGG+TGG | - | Chr3:19444147-19444166 | None:intergenic | 40.0% |
| !! | ATTTTAGGTAGCTCGGGTTT+TGG | - | Chr3:19444357-19444376 | None:intergenic | 40.0% |
| !! | GGTGGAAAATCAAGTTTTGG+AGG | - | Chr3:19444129-19444148 | None:intergenic | 40.0% |
| !! | TTAGGTGATTCGGGGATTTT+AGG | - | Chr3:19444513-19444532 | None:intergenic | 40.0% |
| !! | TTCAGGGATTTTAGGTAGCT+CGG | - | Chr3:19444364-19444383 | None:intergenic | 40.0% |
| !! | TTCGGGGATTTTAGGTAGTT+CGG | - | Chr3:19444505-19444524 | None:intergenic | 40.0% |
| !!! | AAATCAAGTTTTGGAGGCTG+AGG | - | Chr3:19444123-19444142 | None:intergenic | 40.0% |
| AACTTGGGTAGTTCAGGCTT+TGG | - | Chr3:19444318-19444337 | None:intergenic | 45.0% | |
| ACGCTAAACTTGGGTAGTTC+AGG | - | Chr3:19444324-19444343 | None:intergenic | 45.0% | |
| ATAGTAACACAAGGGTTGCC+GGG | + | Chr3:19444070-19444089 | MsG0380012539.01.T01:CDS | 45.0% | |
| CAATTCAGGGACGCTAAACT+TGG | - | Chr3:19444334-19444353 | None:intergenic | 45.0% | |
| GTACCTGAAATGCCAAAGCA+TGG | + | Chr3:19444441-19444460 | MsG0380012539.01.T01:CDS | 45.0% | |
| ! | CTGCTCTAGCTTAGGTGATT+CGG | - | Chr3:19444382-19444401 | None:intergenic | 45.0% |
| ! | GCTCTAGCTTAGGTGATTCA+GGG | - | Chr3:19444380-19444399 | None:intergenic | 45.0% |
| ! | TGCTCTAGCTTAGGTGATTC+AGG | - | Chr3:19444381-19444400 | None:intergenic | 45.0% |
| ! | TGCTCTAGCTTAGGTGATTC+GGG | - | Chr3:19444381-19444400 | None:intergenic | 45.0% |
| ! | TTTGGTAATTCGGGCCCTTT+AGG | - | Chr3:19444300-19444319 | None:intergenic | 45.0% |
| !! | AAATCGGGTTTTGGCAACTC+AGG | - | Chr3:19444243-19444262 | None:intergenic | 45.0% |
| !! | AGTTCGGGTTTTGGCAATTC+AGG | - | Chr3:19444489-19444508 | None:intergenic | 45.0% |
| !! | TCAGGGATTTTAGGTAGCTC+GGG | - | Chr3:19444363-19444382 | None:intergenic | 45.0% |
| !! | TCGGGGATTTTAGGTAGTTC+GGG | - | Chr3:19444504-19444523 | None:intergenic | 45.0% |
| ACCTAAGCTAGAGCAGCCTA+AGG | + | Chr3:19444386-19444405 | MsG0380012539.01.T01:CDS | 50.0% | |
| CCTCCATGCTTTGGCATTTC+AGG | - | Chr3:19444447-19444466 | None:intergenic | 50.0% | |
| CCTGAAATGCCAAAGCATGG+AGG | + | Chr3:19444444-19444463 | MsG0380012539.01.T01:CDS | 50.0% | |
| TAGTAACACAAGGGTTGCCG+GGG | + | Chr3:19444071-19444090 | MsG0380012539.01.T01:CDS | 50.0% | |
| TTAGGCAGTCCTCCATGCTT+TGG | - | Chr3:19444456-19444475 | None:intergenic | 50.0% | |
| ! | ACCTTAGGCTGCTCTAGCTT+AGG | - | Chr3:19444390-19444409 | None:intergenic | 50.0% |
| ! | GCTCTAGCTTAGGTGATTCG+GGG | - | Chr3:19444521-19444540 | None:intergenic | 50.0% |
| !! | AGCTCGGGTTTTGGCAATTC+AGG | - | Chr3:19444348-19444367 | None:intergenic | 50.0% |
| !! | GCTCGGGTTTTGGCAATTCA+GGG | - | Chr3:19444347-19444366 | None:intergenic | 50.0% |
| ! | CTCTAGAAGATTGCGTGCCC+CGG | - | Chr3:19444091-19444110 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr3 | gene | 19444003 | 19444617 | 19444003 | ID=MsG0380012539.01;Name=MsG0380012539.01 |
| Chr3 | mRNA | 19444003 | 19444617 | 19444003 | ID=MsG0380012539.01.T01;Parent=MsG0380012539.01;Name=MsG0380012539.01.T01;_AED=0.35;_eAED=0.35;_QI=0|-1|0|1|-1|1|1|0|204 |
| Chr3 | exon | 19444003 | 19444617 | 19444003 | ID=MsG0380012539.01.T01:exon:3895;Parent=MsG0380012539.01.T01 |
| Chr3 | CDS | 19444003 | 19444617 | 19444003 | ID=MsG0380012539.01.T01:cds;Parent=MsG0380012539.01.T01 |
| Gene Sequence |
| Protein sequence |
