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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1047990 | KEH21597.1 | 95.238 | 357 | 16 | 1 | 1 | 357 | 1 | 356 | 0.0 | 697 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1047990 | sp|Q8LB81|GDL79_ARATH | 66.571 | 347 | 102 | 2 | 23 | 357 | 22 | 366 | 1.46e-172 | 487 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1047990 | A0A072TVX2 | 95.238 | 357 | 16 | 1 | 1 | 357 | 1 | 356 | 0.0 | 697 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0149140 | Msa1047990 | 0.803526 | 3.341971e-49 | -8.615850e-47 |
| Msa0252770 | Msa1047990 | 0.802950 | 4.399003e-49 | -8.615850e-47 |
| Msa0306120 | Msa1047990 | 0.814334 | 1.624119e-51 | -8.615850e-47 |
| Msa0322860 | Msa1047990 | 0.801827 | 7.494168e-49 | -8.615850e-47 |
| Msa0329620 | Msa1047990 | 0.800229 | 1.589466e-48 | -8.615850e-47 |
| Msa0359250 | Msa1047990 | 0.804925 | 1.709594e-49 | -8.615850e-47 |
| Msa0406000 | Msa1047990 | 0.833831 | 4.254693e-56 | -8.615850e-47 |
| Msa0424330 | Msa1047990 | 0.804951 | 1.687776e-49 | -8.615850e-47 |
| Msa0451400 | Msa1047990 | 0.833859 | 4.185520e-56 | -8.615850e-47 |
| Msa0469260 | Msa1047990 | 0.815125 | 1.085164e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1047990 | MtrunA17_Chr7g0215961 | 95.238 | 357 | 16 | 1 | 1 | 357 | 1 | 356 | 0.0 | 697 |
| Msa1047990 | MtrunA17_Chr7g0275021 | 68.378 | 370 | 104 | 2 | 1 | 357 | 1 | 370 | 0.0 | 533 |
| Msa1047990 | MtrunA17_Chr7g0275011 | 65.940 | 367 | 110 | 2 | 1 | 355 | 5 | 368 | 0.0 | 510 |
| Msa1047990 | MtrunA17_Chr6g0457921 | 66.577 | 371 | 105 | 4 | 1 | 357 | 1 | 366 | 2.16e-180 | 504 |
| Msa1047990 | MtrunA17_Chr7g0274991 | 65.840 | 363 | 109 | 3 | 7 | 357 | 10 | 369 | 2.91e-174 | 489 |
| Msa1047990 | MtrunA17_Chr1g0189931 | 65.672 | 335 | 103 | 1 | 32 | 354 | 31 | 365 | 1.42e-171 | 482 |
| Msa1047990 | MtrunA17_Chr7g0275001 | 64.624 | 359 | 111 | 3 | 15 | 357 | 4 | 362 | 1.85e-168 | 474 |
| Msa1047990 | MtrunA17_Chr1g0189901 | 63.798 | 337 | 110 | 1 | 31 | 355 | 29 | 365 | 1.03e-166 | 469 |
| Msa1047990 | MtrunA17_Chr4g0008851 | 62.500 | 360 | 119 | 3 | 12 | 357 | 13 | 370 | 1.72e-163 | 461 |
| Msa1047990 | MtrunA17_Chr1g0182811 | 57.377 | 366 | 137 | 4 | 11 | 357 | 6 | 371 | 4.84e-156 | 442 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1047990 | AT5G33370.1 | 66.571 | 347 | 102 | 2 | 23 | 357 | 22 | 366 | 1.48e-173 | 487 |
| Msa1047990 | AT3G04290.1 | 63.483 | 356 | 116 | 2 | 13 | 356 | 11 | 364 | 2.77e-171 | 481 |
| Msa1047990 | AT5G18430.1 | 64.738 | 363 | 109 | 5 | 6 | 353 | 4 | 362 | 1.10e-168 | 474 |
| Msa1047990 | AT4G28780.1 | 60.548 | 365 | 129 | 4 | 5 | 355 | 2 | 365 | 3.64e-161 | 456 |
| Msa1047990 | AT5G33370.2 | 63.838 | 271 | 84 | 2 | 23 | 281 | 22 | 290 | 2.32e-122 | 356 |
| Msa1047990 | AT2G23540.1 | 36.000 | 375 | 214 | 9 | 1 | 350 | 11 | 384 | 2.57e-76 | 240 |
| Msa1047990 | AT3G50400.1 | 37.500 | 368 | 209 | 10 | 1 | 347 | 1 | 368 | 2.00e-73 | 232 |
| Msa1047990 | AT5G15720.1 | 37.015 | 335 | 197 | 6 | 33 | 353 | 30 | 364 | 2.40e-68 | 219 |
| Msa1047990 | AT1G71691.2 | 37.391 | 345 | 193 | 7 | 22 | 354 | 51 | 384 | 1.13e-67 | 218 |
| Msa1047990 | AT1G33811.1 | 34.239 | 368 | 219 | 9 | 8 | 353 | 4 | 370 | 3.12e-65 | 211 |
Find 72 sgRNAs with CRISPR-Local
Find 284 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGGCAAATAGACTTATTG+TGG | 0.517199 | 7_2:+9231487 | Msa1047990:CDS |
| AAAGGGCATAAACTTCTAAT+TGG | 0.258824 | 7_2:+9230143 | Msa1047990:CDS |
| AAAGTAGCTTGTTGTGGGCA+AGG | 0.536850 | 7_2:+9231371 | Msa1047990:CDS |
| AAATGTTACAAAGACTCAAT+AGG | 0.446396 | 7_2:+9231141 | Msa1047990:CDS |
| AACTTGACATAGTGTGGTAA+TGG | 0.474573 | 7_2:-9230754 | None:intergenic |
| AATACATACAAGTCTCTGTT+AGG | 0.315997 | 7_2:-9231440 | None:intergenic |
| AATTCCAGCTGAACCAAAAT+TGG | 0.235478 | 7_2:-9230168 | None:intergenic |
| ACAACCCAATGGTCCTGTTC+CGG | 0.513728 | 7_2:-9231027 | None:intergenic |
| ACAGAGACTTGTATGTATTT+TGG | 0.108906 | 7_2:+9231444 | Msa1047990:CDS |
| ACATCAAAAGTAGCTTGTTG+TGG | 0.536147 | 7_2:+9231365 | Msa1047990:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TTATGTGGTATTGTTCCTAA+AGG | + | chr7_2:9229358-9229377 | Msa1047990:CDS | 30.0% | |
| GTTGGATAATCAATTCCATA+AGG | - | chr7_2:9229481-9229500 | None:intergenic | 30.0% | |
| AAATGGGAAGCAATATTTGT+TGG | - | chr7_2:9229665-9229684 | None:intergenic | 30.0% | |
| TTCTCTAGACATTGAATTTG+AGG | + | chr7_2:9229701-9229720 | Msa1047990:intron | 30.0% | |
| GAAAGTAACCAGTAAATTTG+AGG | - | chr7_2:9229915-9229934 | None:intergenic | 30.0% | |
| TTTAATTCTGGGCTCAAATA+TGG | - | chr7_2:9230125-9230144 | None:intergenic | 30.0% | |
| TATTTGAGCCCAGAATTAAA+AGG | + | chr7_2:9230125-9230144 | Msa1047990:CDS | 30.0% | |
| ATTTGAGCCCAGAATTAAAA+GGG | + | chr7_2:9230126-9230145 | Msa1047990:CDS | 30.0% | |
| ATTGGAATCCTTAATGATAC+AGG | + | chr7_2:9230188-9230207 | Msa1047990:CDS | 30.0% | |
| ATTGATCTCCTGTATCATTA+AGG | - | chr7_2:9230199-9230218 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_2 | gene | 9229301 | 9231659 | 9229301 | ID=Msa1047990;Name=Msa1047990 |
| chr7_2 | mRNA | 9229301 | 9231659 | 9229301 | ID=Msa1047990-mRNA-1;Parent=Msa1047990;Name=Msa1047990-mRNA-1;_AED=0.14;_eAED=0.14;_QI=0|0.75|0.8|1|0.75|0.8|5|70|357 |
| chr7_2 | exon | 9229301 | 9229517 | 9229301 | ID=Msa1047990-mRNA-1:exon:2435;Parent=Msa1047990-mRNA-1 |
| chr7_2 | exon | 9230093 | 9230220 | 9230093 | ID=Msa1047990-mRNA-1:exon:2436;Parent=Msa1047990-mRNA-1 |
| chr7_2 | exon | 9230565 | 9230807 | 9230565 | ID=Msa1047990-mRNA-1:exon:2437;Parent=Msa1047990-mRNA-1 |
| chr7_2 | exon | 9230990 | 9231242 | 9230990 | ID=Msa1047990-mRNA-1:exon:2438;Parent=Msa1047990-mRNA-1 |
| chr7_2 | exon | 9231357 | 9231659 | 9231357 | ID=Msa1047990-mRNA-1:exon:2439;Parent=Msa1047990-mRNA-1 |
| chr7_2 | CDS | 9229301 | 9229517 | 9229301 | ID=Msa1047990-mRNA-1:cds;Parent=Msa1047990-mRNA-1 |
| chr7_2 | CDS | 9230093 | 9230220 | 9230093 | ID=Msa1047990-mRNA-1:cds;Parent=Msa1047990-mRNA-1 |
| chr7_2 | CDS | 9230565 | 9230807 | 9230565 | ID=Msa1047990-mRNA-1:cds;Parent=Msa1047990-mRNA-1 |
| chr7_2 | CDS | 9230990 | 9231242 | 9230990 | ID=Msa1047990-mRNA-1:cds;Parent=Msa1047990-mRNA-1 |
| chr7_2 | CDS | 9231357 | 9231589 | 9231357 | ID=Msa1047990-mRNA-1:cds;Parent=Msa1047990-mRNA-1 |
| chr7_2 | three_prime_UTR | 9231590 | 9231659 | 9231590 | ID=Msa1047990-mRNA-1:three_prime_utr;Parent=Msa1047990-mRNA-1 |
| Gene Sequence |
>Msa1047990 ATGGCACCATCTTCAAGTTTTGTTCATATTATGGTAGTTCTTAGTTTAGTTTTGGTGTTATGTGGTATTGTTCCTAAAGGTGAAGCTAGGAGAAGAGCTTTTTTTGTATTTGGAGATTCACTTGTCGATAATGGAAATAACAACTATTTGCTTACTACTGCTCGTGCTGATTCTCCTCCTTATGGAATTGATTATCCAACTCGTAGACCAACTGGTCGTCAGCAACTTGAAACTGTGTCTACTTTACCATATTTGAGCCCAGAATTAAAAGGGCATAAACTTCTAATTGGTGCCAATTTTGGTTCAGCTGGAATTGGAATCCTTAATGATACAGGAGATCAATTTATAAATGTGGTAAAAATGCATACACAACTGGATTACTTTGAAGAGTATCAACGTCGATTAACGAATTTAATAGGCGGTCGGAGGACTAGAAGACTTGTTAATCAAGCATTGTTTCTCATGACAGTTGGAGGCAATGATTTTGTAAACAACTATTACCTTGTGCCTTCTTCTTCAAGGTCTCGCCAATATCCATTACCACACTATGTCAAGTTCCTCATTTGTGAGTACAGAAAGCACTTACAGAGGCTATATGATTTGGGCGCTCGGCGAGTTCTAGTCACCGGAACAGGACCATTGGGTTGTGCTCCTGCAGAACTCGCTACGCGTAGCAGAAATGGTGAATGCTCGGTGGAACTACAACGTGGTGCAGCATTATACAACCCTCAACTTGAACAAATGTTACAAAGACTCAATAGGAAACTTGGCAGTGACATTTTCATTGCTGCAAATACAGCACAAATGCACAAAGATTTTGTTACTAATCCAACAGCTTATGGATTTGTTACATCAAAAGTAGCTTGTTGTGGGCAAGGACCCTATAATGGCATTGGAGTGTGCACAACATGCTCCAACTTGTGCCCTAACAGAGACTTGTATGTATTTTGGGATCCATTCCATCCATCTGAAAAGGCAAATAGACTTATTGTGGAGCAAATTATGTCAGGTTCAACAAGATACATGAAGCCAATGAACCTTAGCACCATTCTTTCTTTGGATGCTAGCACATGA |
| Protein sequence |
>Msa1047990 MAPSSSFVHIMVVLSLVLVLCGIVPKGEARRRAFFVFGDSLVDNGNNNYLLTTARADSPPYGIDYPTRRPTGRQQLETVSTLPYLSPELKGHKLLIGANFGSAGIGILNDTGDQFINVVKMHTQLDYFEEYQRRLTNLIGGRRTRRLVNQALFLMTVGGNDFVNNYYLVPSSSRSRQYPLPHYVKFLICEYRKHLQRLYDLGARRVLVTGTGPLGCAPAELATRSRNGECSVELQRGAALYNPQLEQMLQRLNRKLGSDIFIAANTAQMHKDFVTNPTAYGFVTSKVACCGQGPYNGIGVCTTCSNLCPNRDLYVFWDPFHPSEKANRLIVEQIMSGSTRYMKPMNLSTILSLDAST* |
