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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1130110 | XP_024625734.1 | 92.807 | 431 | 26 | 1 | 1 | 431 | 1 | 426 | 0.0 | 758 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1130110 | sp|Q66GQ2|Y5162_ARATH | 35.491 | 479 | 193 | 12 | 16 | 415 | 17 | 458 | 4.51e-68 | 231 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1130110 | A0A396H8E0 | 92.807 | 431 | 26 | 1 | 1 | 431 | 1 | 426 | 0.0 | 758 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0001790 | Msa1130110 | 0.808215 | 3.454745e-50 | -8.615850e-47 |
| Msa0005350 | Msa1130110 | 0.806138 | 9.512617e-50 | -8.615850e-47 |
| Msa0007080 | Msa1130110 | 0.800135 | 1.660984e-48 | -8.615850e-47 |
| Msa0011720 | Msa1130110 | 0.824786 | 6.682121e-54 | -8.615850e-47 |
| Msa0014800 | Msa1130110 | 0.825368 | 4.870494e-54 | -8.615850e-47 |
| Msa0015300 | Msa1130110 | 0.800980 | 1.117048e-48 | -8.615850e-47 |
| Msa0050760 | Msa1130110 | 0.804184 | 2.439672e-49 | -8.615850e-47 |
| Msa0053900 | Msa1130110 | 0.820909 | 5.346453e-53 | -8.615850e-47 |
| Msa0071240 | Msa1130110 | 0.805663 | 1.197496e-49 | -8.615850e-47 |
| Msa0089360 | Msa1130110 | 0.805640 | 1.210998e-49 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1130110 | MtrunA17_Chr7g0275251 | 92.807 | 431 | 26 | 1 | 1 | 431 | 1 | 426 | 0.0 | 758 |
| Msa1130110 | MtrunA17_Chr8g0347871 | 45.905 | 464 | 186 | 12 | 15 | 438 | 14 | 452 | 4.95e-109 | 333 |
| Msa1130110 | MtrunA17_Chr5g0397031 | 41.873 | 363 | 145 | 8 | 54 | 358 | 60 | 414 | 7.24e-75 | 246 |
| Msa1130110 | MtrunA17_Chr7g0266861 | 27.488 | 422 | 201 | 14 | 22 | 357 | 36 | 438 | 1.15e-25 | 110 |
| Msa1130110 | MtrunA17_Chr3g0098801 | 25.429 | 350 | 207 | 10 | 135 | 444 | 199 | 534 | 6.04e-22 | 99.0 |
| Msa1130110 | MtrunA17_Chr5g0444041 | 29.130 | 230 | 149 | 3 | 129 | 358 | 188 | 403 | 6.47e-22 | 98.6 |
| Msa1130110 | MtrunA17_Chr4g0026051 | 26.131 | 398 | 221 | 13 | 22 | 356 | 48 | 435 | 8.02e-19 | 89.4 |
| Msa1130110 | MtrunA17_Chr2g0321731 | 26.792 | 265 | 180 | 5 | 116 | 375 | 205 | 460 | 3.48e-17 | 84.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1130110 | AT5G41620.1 | 35.491 | 479 | 193 | 12 | 16 | 415 | 17 | 458 | 4.59e-69 | 231 |
| Msa1130110 | AT5G41620.4 | 40.282 | 355 | 162 | 7 | 92 | 415 | 6 | 341 | 5.54e-65 | 217 |
| Msa1130110 | AT5G41620.3 | 40.282 | 355 | 162 | 7 | 92 | 415 | 6 | 341 | 5.54e-65 | 217 |
| Msa1130110 | AT1G64180.1 | 36.782 | 348 | 154 | 7 | 62 | 360 | 61 | 391 | 1.26e-55 | 194 |
| Msa1130110 | AT5G41620.2 | 42.756 | 283 | 137 | 6 | 139 | 415 | 36 | 299 | 3.61e-55 | 190 |
| Msa1130110 | AT2G46250.1 | 35.207 | 338 | 157 | 7 | 27 | 329 | 20 | 330 | 8.24e-42 | 154 |
| Msa1130110 | AT3G11590.1 | 29.647 | 425 | 206 | 11 | 13 | 357 | 35 | 446 | 1.74e-35 | 139 |
| Msa1130110 | AT2G46250.2 | 40.580 | 207 | 102 | 2 | 123 | 329 | 54 | 239 | 2.00e-33 | 129 |
| Msa1130110 | AT3G11590.2 | 33.790 | 219 | 141 | 2 | 139 | 357 | 70 | 284 | 2.83e-27 | 114 |
| Msa1130110 | AT1G50660.1 | 27.574 | 272 | 173 | 8 | 129 | 396 | 212 | 463 | 9.03e-25 | 107 |
Find 107 sgRNAs with CRISPR-Local
Find 166 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGTCAACAAGTCTCCAAG+TGG | 0.666077 | 7_3:-82194478 | None:intergenic |
| AAAGTCCACCAGAAAATGAT+AGG | 0.498720 | 7_3:+82196614 | Msa1130110:three_prime_UTR |
| AAATCTCTGTGCTAAACTCT+GGG | 0.540999 | 7_3:+82194560 | Msa1130110:CDS |
| AAATGATAGGTGCAGGACCA+AGG | 0.580181 | 7_3:+82196627 | Msa1130110:three_prime_UTR |
| AACAGTTCTTTGTCATCAGA+AGG | 0.531010 | 7_3:+82196688 | Msa1130110:three_prime_UTR |
| AACTCTTGTTGATGAGAAGA+AGG | 0.480434 | 7_3:-82194501 | None:intergenic |
| AAGAAAAGTACCTGGTGAGA+GGG | 0.598007 | 7_3:-82194627 | None:intergenic |
| AAGAGATTGAAGATGAAAGG+AGG | 0.590101 | 7_3:+82195920 | Msa1130110:CDS |
| AAGCAAGTTCAAGATGGTAT+TGG | 0.504529 | 7_3:+82196225 | Msa1130110:CDS |
| AAGGGAAGAAGGAATAATGG+TGG | 0.618908 | 7_3:+82194392 | Msa1130110:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GGAAAGAAGAGAAAAATGTA+TGG | + | chr7_3:82194365-82194384 | Msa1130110:CDS | 30.0% | |
| GAGAAAAATGTATGGAGAAA+AGG | + | chr7_3:82194373-82194392 | Msa1130110:CDS | 30.0% | |
| TAGGGATAGTTAATTCGAAA+AGG | - | chr7_3:82194940-82194959 | None:intergenic | 30.0% | |
| GAACACAATTATATGGACAT+TGG | - | chr7_3:82195059-82195078 | None:intergenic | 30.0% | |
| AGTCTTTCAGCTATCAATAA+AGG | - | chr7_3:82195084-82195103 | None:intergenic | 30.0% | |
| TCAAACATAATCCTGACTTT+AGG | - | chr7_3:82195126-82195145 | None:intergenic | 30.0% | |
| TTCATTAAAAATGCCTCAGA+AGG | - | chr7_3:82195536-82195555 | None:intergenic | 30.0% | |
| GAAAATGAATAAGCAGGAAA+TGG | + | chr7_3:82195807-82195826 | Msa1130110:CDS | 30.0% | |
| TTCATAATCTCTTACTCCTT+TGG | - | chr7_3:82196088-82196107 | None:intergenic | 30.0% | |
| ATTGGATTCCTTTCAACTAA+AGG | + | chr7_3:82196395-82196414 | Msa1130110:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_3 | gene | 82194284 | 82197059 | 82194284 | ID=Msa1130110;Name=Msa1130110 |
| chr7_3 | mRNA | 82194284 | 82197059 | 82194284 | ID=Msa1130110-mRNA-1;Parent=Msa1130110;Name=Msa1130110-mRNA-1;_AED=0.19;_eAED=0.19;_QI=79|1|1|1|1|1|3|472|444 |
| chr7_3 | exon | 82194284 | 82194638 | 82194284 | ID=Msa1130110-mRNA-1:exon:24173;Parent=Msa1130110-mRNA-1 |
| chr7_3 | exon | 82195231 | 82195356 | 82195231 | ID=Msa1130110-mRNA-1:exon:24174;Parent=Msa1130110-mRNA-1 |
| chr7_3 | exon | 82195655 | 82197059 | 82195655 | ID=Msa1130110-mRNA-1:exon:24175;Parent=Msa1130110-mRNA-1 |
| chr7_3 | five_prime_UTR | 82194284 | 82194362 | 82194284 | ID=Msa1130110-mRNA-1:five_prime_utr;Parent=Msa1130110-mRNA-1 |
| chr7_3 | CDS | 82194363 | 82194638 | 82194363 | ID=Msa1130110-mRNA-1:cds;Parent=Msa1130110-mRNA-1 |
| chr7_3 | CDS | 82195231 | 82195356 | 82195231 | ID=Msa1130110-mRNA-1:cds;Parent=Msa1130110-mRNA-1 |
| chr7_3 | CDS | 82195655 | 82196587 | 82195655 | ID=Msa1130110-mRNA-1:cds;Parent=Msa1130110-mRNA-1 |
| chr7_3 | three_prime_UTR | 82196588 | 82197059 | 82196588 | ID=Msa1130110-mRNA-1:three_prime_utr;Parent=Msa1130110-mRNA-1 |
| Gene Sequence |
>Msa1130110 ATGGAAAGAAGAGAAAAATGTATGGAGAAAAGGGAAGAAGGAATAATGGTGGAAAAGTTGAAACTTTTGGAGAAGAGAGGAGGAAGAGGAAGGTCTTCAAGTTCAACACCACCACCCACTTGGAGACTTGTTGACTTTCCTTCTTCTCATCAACAAGAGTTTCTCAACTTTCCCACTTCAAAAACACTCTCTGCAAGAAATCTCTGTGCTAAACTCTGGGAATTTCACTCCCACCACCATGAGCCTCCTCATAGTCATAGTAGTCCCTCTCACCAGCCAGCATCTGCTAGAGACTCGAGAAGACGTGTTCAAGCATCAGTTGTTCAGCACGGTAAATCAGTCGACAGAAATTGTTCGGCTCTACAGTCTGTGTCCCCTTCTAATTGCCTTAGCTCAATGGAAGTTACACAAGAGTCATCCAGAGAGTTAGTCAAGGTTCTCAAACGTAGCCGGCGTCTTGAAGAACAGGATGCGTCGAATATAGCAATAGTGAAAGCTCTGATAGTGGAACTAGATCTTTCTCAAACACAGGTAAAAGAGTTACTACAAGAAAAGAAAATGAATAAGCAGGAAATGGAGAGCTTAATGAAGAAAATAACAGAAGACAAACTTGTTAACAAGAACAAAGAGCATGAAAAGATCAAAGCTGTAGTTCAATCAGTCAAGGAAGAGATTGAAGATGAAAGGAGGTTAAGAAAGCATTCAGAAAGCCTGTATCAGAAGCTGGCTAGTGAGCTTTATGAAGTGAAGTCTTTGTTACGTGGTACTCTGAGAGATCTCGAAAGAGAAAAAAAAGAAAGGATCCTTTTGGAGAATTTGTGTGATGATTTTGCCAAAGGAGTAAGAGATTATGAACATGAATTACGTTCTATTATGCATAATAGTGCGGATAAGGATCGCATTAATGGTGATAGCCTTGATAGGCTAATACTTCACATTTCAGAGGCTTGGCTTGACGAGCGCACACAAATGAAGCAAGTTCAAGATGGTATTGGTAGTGATCTCCTAGAGACACATTCAATAGTTGACAAGTTACGTGTTGATATTGAAACATTTCTTCTTACAAAAAGATCTATTGACTTGAAGAGATATAATTTCCCCTCCATTAAAGAAGTCAAGGAAATTCACCCTTGCCTACCTTCATTGGATTCCTTTCAACTAAAGGAGACAATAAATTCACCTCATAATTTTGCCGAGGAAGCTTCCGTTGGTACCAACAAGTTTGAACAGAAAAGGACTGCGGAGAACAGACTTAACAAGTGCTTTGTTGAGGGGAAATCAAGTGAAATTAATACAGCATTGAAGGTACAGCAGAGATCTATTAAATGCTCCTAG |
| Protein sequence |
>Msa1130110 MERREKCMEKREEGIMVEKLKLLEKRGGRGRSSSSTPPPTWRLVDFPSSHQQEFLNFPTSKTLSARNLCAKLWEFHSHHHEPPHSHSSPSHQPASARDSRRRVQASVVQHGKSVDRNCSALQSVSPSNCLSSMEVTQESSRELVKVLKRSRRLEEQDASNIAIVKALIVELDLSQTQVKELLQEKKMNKQEMESLMKKITEDKLVNKNKEHEKIKAVVQSVKEEIEDERRLRKHSESLYQKLASELYEVKSLLRGTLRDLEREKKERILLENLCDDFAKGVRDYEHELRSIMHNSADKDRINGDSLDRLILHISEAWLDERTQMKQVQDGIGSDLLETHSIVDKLRVDIETFLLTKRSIDLKRYNFPSIKEVKEIHPCLPSLDSFQLKETINSPHNFAEEASVGTNKFEQKRTAENRLNKCFVEGKSSEINTALKVQQRSIKCS* |
