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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0267320 | XP_003611271.3 | 96.923 | 455 | 14 | 0 | 1 | 455 | 17 | 471 | 0.0 | 921 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0267320 | sp|Q9SXD5|GSXL3_ARATH | 61.726 | 452 | 162 | 5 | 10 | 454 | 3 | 450 | 0.0 | 582 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0267320 | A0A396HK78 | 96.923 | 455 | 14 | 0 | 1 | 455 | 17 | 471 | 0.0 | 921 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000610 | Msa0267320 | 0.847116 | 1.417522e-59 | -8.615850e-47 |
| Msa0001040 | Msa0267320 | 0.835920 | 1.266597e-56 | -8.615850e-47 |
| Msa0001510 | Msa0267320 | 0.833734 | 4.498387e-56 | -8.615850e-47 |
| Msa0002110 | Msa0267320 | 0.862656 | 4.341632e-64 | -8.615850e-47 |
| Msa0002690 | Msa0267320 | 0.850744 | 1.392721e-60 | -8.615850e-47 |
| Msa0002700 | Msa0267320 | 0.850395 | 1.745445e-60 | -8.615850e-47 |
| Msa0003340 | Msa0267320 | 0.853751 | 1.943079e-61 | -8.615850e-47 |
| Msa0004180 | Msa0267320 | 0.832563 | 8.802892e-56 | -8.615850e-47 |
| Msa0005500 | Msa0267320 | 0.856914 | 2.330082e-62 | -8.615850e-47 |
| Msa0007570 | Msa0267320 | 0.847977 | 8.216355e-60 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0267320 | MtrunA17_Chr5g0399001 | 96.923 | 455 | 14 | 0 | 1 | 455 | 17 | 471 | 0.0 | 921 |
| Msa0267320 | MtrunA17_Chr8g0352461 | 53.440 | 436 | 187 | 5 | 17 | 446 | 4 | 429 | 2.08e-164 | 470 |
| Msa0267320 | MtrunA17_Chr8g0352481 | 53.302 | 424 | 190 | 4 | 17 | 440 | 4 | 419 | 4.79e-161 | 461 |
| Msa0267320 | MtrunA17_Chr3g0091441 | 47.912 | 455 | 212 | 9 | 5 | 446 | 1 | 443 | 9.76e-148 | 429 |
| Msa0267320 | MtrunA17_Chr2g0304651 | 23.622 | 254 | 134 | 9 | 15 | 235 | 3 | 229 | 6.28e-13 | 70.9 |
| Msa0267320 | MtrunA17_Chr2g0305211 | 23.695 | 249 | 126 | 9 | 15 | 228 | 3 | 222 | 6.36e-13 | 70.9 |
| Msa0267320 | MtrunA17_Chr2g0305231 | 23.695 | 249 | 126 | 9 | 15 | 228 | 3 | 222 | 6.36e-13 | 70.9 |
| Msa0267320 | MtrunA17_Chr7g0268611 | 26.087 | 230 | 132 | 7 | 17 | 240 | 8 | 205 | 9.77e-13 | 69.7 |
| Msa0267320 | MtrunA17_Chr7g0268621 | 23.132 | 281 | 179 | 6 | 17 | 295 | 6 | 251 | 1.06e-12 | 69.3 |
| Msa0267320 | MtrunA17_Chr7g0262591 | 24.034 | 233 | 135 | 6 | 18 | 241 | 25 | 224 | 1.96e-12 | 68.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0267320 | AT1G62620.1 | 61.726 | 452 | 162 | 5 | 10 | 454 | 3 | 450 | 0.0 | 582 |
| Msa0267320 | AT1G63370.1 | 61.504 | 452 | 163 | 5 | 10 | 454 | 3 | 450 | 0.0 | 582 |
| Msa0267320 | AT1G62600.1 | 62.281 | 456 | 161 | 6 | 4 | 453 | 1 | 451 | 0.0 | 571 |
| Msa0267320 | AT1G12200.1 | 60.526 | 456 | 169 | 6 | 5 | 453 | 1 | 452 | 0.0 | 547 |
| Msa0267320 | AT1G62560.1 | 55.408 | 453 | 196 | 3 | 5 | 455 | 1 | 449 | 0.0 | 528 |
| Msa0267320 | AT1G12140.1 | 58.499 | 453 | 181 | 3 | 5 | 455 | 1 | 448 | 0.0 | 528 |
| Msa0267320 | AT1G12140.3 | 58.499 | 453 | 181 | 3 | 5 | 455 | 1 | 448 | 0.0 | 528 |
| Msa0267320 | AT1G62580.2 | 60.044 | 453 | 174 | 6 | 4 | 453 | 1 | 449 | 0.0 | 526 |
| Msa0267320 | AT1G62620.2 | 64.767 | 386 | 129 | 4 | 10 | 388 | 3 | 388 | 0.0 | 523 |
| Msa0267320 | AT1G12140.2 | 58.057 | 453 | 181 | 4 | 5 | 455 | 1 | 446 | 0.0 | 519 |
Find 153 sgRNAs with CRISPR-Local
Find 324 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACCCAACAAAGGAAAGCCA+TGG | 0.607422 | 2_2:+68873688 | None:intergenic |
| AACTGGATTGCTGATCAGTG+CGG | 0.766461 | 2_2:-68872408 | Msa0267320:CDS |
| AAGAAAATAACCAGGAATAT+TGG | 0.264046 | 2_2:+68875616 | None:intergenic |
| AAGAATCTGGCATTCCTAAG+AGG | 0.544319 | 2_2:-68873531 | Msa0267320:CDS |
| AAGACAGAGGTGGTGTTTGC+TGG | 0.296073 | 2_2:-68875755 | Msa0267320:CDS |
| AAGAGGCACACTCATAATAT+GGG | 0.527124 | 2_2:-68873514 | Msa0267320:CDS |
| AAGGTTCCCGAGTCATGGAG+AGG | 0.638374 | 2_2:-68875837 | Msa0267320:CDS |
| AATAGGTGGTGCTGCCAGTG+CGG | 0.737644 | 2_2:-68874420 | Msa0267320:CDS |
| AATATGAACTTCTTTAGCAA+CGG | 0.565855 | 2_2:+68874373 | None:intergenic |
| AATGAAGCCACATGTTATCA+TGG | 0.526082 | 2_2:+68874306 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TCATGTTCATTCATGTGATA+GGG | + | chr2_2:68872107-68872126 | None:intergenic | 30.0% | |
| ATCATGTTCATTCATGTGAT+AGG | + | chr2_2:68872108-68872127 | None:intergenic | 30.0% | |
| TACTGTAATCATAATTCCTG+TGG | - | chr2_2:68872130-68872149 | Msa0267320:three_prime_UTR | 30.0% | |
| GGATATGTATTGTTATAAGC+AGG | - | chr2_2:68873073-68873092 | Msa0267320:intron | 30.0% | |
| TCACTTACTTGATCTTGAAA+GGG | + | chr2_2:68873636-68873655 | None:intergenic | 30.0% | |
| ATCACTTACTTGATCTTGAA+AGG | + | chr2_2:68873637-68873656 | None:intergenic | 30.0% | |
| TCAAGATCAAGTAAGTGATA+TGG | - | chr2_2:68873638-68873657 | Msa0267320:CDS | 30.0% | |
| AGCATATGTAATATGTTCGA+TGG | + | chr2_2:68873864-68873883 | None:intergenic | 30.0% | |
| TATCTATGGTGAGAATTAGA+TGG | - | chr2_2:68874112-68874131 | Msa0267320:CDS | 30.0% | |
| TATGGTTACTAATGTCATGA+TGG | + | chr2_2:68874138-68874157 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_2 | gene | 68872044 | 68876357 | 68872044 | ID=Msa0267320;Name=Msa0267320 |
| chr2_2 | mRNA | 68872044 | 68876357 | 68872044 | ID=Msa0267320-mRNA-1;Parent=Msa0267320;Name=Msa0267320-mRNA-1;_AED=0.03;_eAED=0.03;_QI=175|1|1|1|1|1|6|216|455 |
| chr2_2 | exon | 68872044 | 68872442 | 68872044 | ID=Msa0267320-mRNA-1:exon:21868;Parent=Msa0267320-mRNA-1 |
| chr2_2 | exon | 68873492 | 68873813 | 68873492 | ID=Msa0267320-mRNA-1:exon:21867;Parent=Msa0267320-mRNA-1 |
| chr2_2 | exon | 68874103 | 68874185 | 68874103 | ID=Msa0267320-mRNA-1:exon:21866;Parent=Msa0267320-mRNA-1 |
| chr2_2 | exon | 68874301 | 68874453 | 68874301 | ID=Msa0267320-mRNA-1:exon:21865;Parent=Msa0267320-mRNA-1 |
| chr2_2 | exon | 68874754 | 68874824 | 68874754 | ID=Msa0267320-mRNA-1:exon:21864;Parent=Msa0267320-mRNA-1 |
| chr2_2 | exon | 68875627 | 68876357 | 68875627 | ID=Msa0267320-mRNA-1:exon:21863;Parent=Msa0267320-mRNA-1 |
| chr2_2 | five_prime_UTR | 68876183 | 68876357 | 68876183 | ID=Msa0267320-mRNA-1:five_prime_utr;Parent=Msa0267320-mRNA-1 |
| chr2_2 | CDS | 68875627 | 68876182 | 68875627 | ID=Msa0267320-mRNA-1:cds;Parent=Msa0267320-mRNA-1 |
| chr2_2 | CDS | 68874754 | 68874824 | 68874754 | ID=Msa0267320-mRNA-1:cds;Parent=Msa0267320-mRNA-1 |
| chr2_2 | CDS | 68874301 | 68874453 | 68874301 | ID=Msa0267320-mRNA-1:cds;Parent=Msa0267320-mRNA-1 |
| chr2_2 | CDS | 68874103 | 68874185 | 68874103 | ID=Msa0267320-mRNA-1:cds;Parent=Msa0267320-mRNA-1 |
| chr2_2 | CDS | 68873492 | 68873813 | 68873492 | ID=Msa0267320-mRNA-1:cds;Parent=Msa0267320-mRNA-1 |
| chr2_2 | CDS | 68872260 | 68872442 | 68872260 | ID=Msa0267320-mRNA-1:cds;Parent=Msa0267320-mRNA-1 |
| chr2_2 | three_prime_UTR | 68872044 | 68872259 | 68872044 | ID=Msa0267320-mRNA-1:three_prime_utr;Parent=Msa0267320-mRNA-1 |
| Gene Sequence |
>Msa0267320 ATGAAATTCATCATGCCCACCGCAACACCACTTCTCACACCCCGCCACGTGGCAGTCATCGGCGCCGGCGCCGGAGGCTTAGTAGCAGCACGCGAGCTCCGACGAGAAGGACATCAAGTAGTAGTCTTCGAGCGAGGAGAAGAATTGGGCGGTTCATGGGTCTATACTCCAGAGATAGAATCCGACCCACTCGGTTTGGACCCGAACCGGAAGCTTATCCACTCGAGCCTATACAATTCACTCCGAACCAATTTGCCTCGGGAGAGTATGGGTTTCCGAGATTACCCTTTTAGAAGAAAAGAAGAGAAAGGGAGAGATTGTAGAAGGTTCCCGAGTCATGGAGAGGTTTTGATGTATTTGAAGGATTTTGCTGAAGATTTTGAGATTGGTGATTTGGTGAGGTTGAAGACAGAGGTGGTGTTTGCTGGGGTGGGTGAAGGTGGGAAATGGACGGTGAGATCTAGATCGGTGGAGAGGGAATGTGTGGATGAGATTTACGATGCTGTTGTTGTTTGCAATGGACATTATTTTCAACCGAGACTTCCCAATATTCCTGGCATTAATGCATGGCCAGGGAAGCAAATGCATAGCCATAATTACAGAACACCCGAGCCCTTTCAAGATCAAGTTGTAGTTCTAATAGGTGGTGCTGCCAGTGCGGTTGATATTTCTCGAGACGTGGCAACCGTTGCTAAAGAAGTTCATATTGCAGCTAGATCTGTTGAAGAAGATAAGCTTGGAAAGTTACCTGGCCATGATAACATGTGGCTTCATTCTATGATTGACAGTGTTCATGAAGATGGTACAGTGGTTTTCAAAGATGGAAATGCAGTTATTGCTGACTTCATTGTACATTGCACAGGGTACAAGTATGATTTTCCTTTCCTTGAAACCAATGGTGTGGTGACCGTAGATGACAATCGTGTTGGACCGCTCTACAAGCATGTTTTTCCACCGGCGTTAGCTCCATGGCTTTCCTTTGTTGGGTTACCTTGGAAGGTTGCTCCTTTCCCTTTGTTTGAACTGCAGAGCAAGTGGATAGCTGGAGTTTTGTCTAATCGCATTGCCCTTCCTTCAGAAGAGGAGATGACTAAAGATATTGAGGCTTTTTACTTGTCACTTGAAGAATCTGGCATTCCTAAGAGGCACACTCATAATATGGGCACGGGCTCGGCCAATGTTCAGTGGGACTACAATAACTGGATTGCTGATCAGTGCGGTGTTCCTGCTATGGAAGAATGGAGAACGCAAATGTATATGGCTACATCTAAGAACAGGCTCTTGCGACCTGAGACTTATCGTGACGAGTGGGATGATGATGACATTGTTCAACAAGCTGAGCATGAATTTGCTAATTATCAGATATAA |
| Protein sequence |
>Msa0267320 MKFIMPTATPLLTPRHVAVIGAGAGGLVAARELRREGHQVVVFERGEELGGSWVYTPEIESDPLGLDPNRKLIHSSLYNSLRTNLPRESMGFRDYPFRRKEEKGRDCRRFPSHGEVLMYLKDFAEDFEIGDLVRLKTEVVFAGVGEGGKWTVRSRSVERECVDEIYDAVVVCNGHYFQPRLPNIPGINAWPGKQMHSHNYRTPEPFQDQVVVLIGGAASAVDISRDVATVAKEVHIAARSVEEDKLGKLPGHDNMWLHSMIDSVHEDGTVVFKDGNAVIADFIVHCTGYKYDFPFLETNGVVTVDDNRVGPLYKHVFPPALAPWLSFVGLPWKVAPFPLFELQSKWIAGVLSNRIALPSEEEMTKDIEAFYLSLEESGIPKRHTHNMGTGSANVQWDYNNWIADQCGVPAMEEWRTQMYMATSKNRLLRPETYRDEWDDDDIVQQAEHEFANYQI* |
